Difference between revisions of "MYB"

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(Created page with "==Brief Introduction== * The MYB gene family is one of the largest groups of transcription facotrs in plants. MYB genes are classified into four major groups, including 1R-MYB...")
 
(→‎Brief Introduction)
 
(7 intermediate revisions by 2 users not shown)
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<br>[[File:BGIOSGA017917.png|center|thumb|1000px|'''Figure 3.''' ''Gene structure of BGIOSGA017917.'' (R1R2R3-MYB)]]
 
<br>[[File:BGIOSGA017917.png|center|thumb|1000px|'''Figure 3.''' ''Gene structure of BGIOSGA017917.'' (R1R2R3-MYB)]]
 
* Although some previous study suggested that MYB TFs in plants play a key role in secondary metabolism, hormone signal transduction, cellular morphogenesis, disease resistance and abiotic stress tolerance, the precise functions of most plant Myb genes are still rarely known<ref name="ref1" /><ref name="ref2" /><ref name="ref4" />.
 
* Although some previous study suggested that MYB TFs in plants play a key role in secondary metabolism, hormone signal transduction, cellular morphogenesis, disease resistance and abiotic stress tolerance, the precise functions of most plant Myb genes are still rarely known<ref name="ref1" /><ref name="ref2" /><ref name="ref4" />.
−
* So far, no 4R-MYB genes were found through rice genome, neither in '''''Japonica Group''''' nor '''''Indica Group'''''. However, a very special MYB gene [[Os07g0139500|'''''Os07g0139500''''']] with more than four MYB repeats  were identified by our ''RiceWiki Curation Team'' using '''NCBI BLASTP''' ('''Figure 4'''). And its particular '''5R-MYB'''-structure was further acknowledged by '''HMM Tools''' ('''Figure 5''') as well as [http://smart.embl-heidelberg.de/ '''''SMART'''''](Simple Modular Architecture Research Tool) ('''Figure 6'''). Of course, more molecular biological studies are required for confirming the existence of 5R-MYB genes in plants.
+
* So far, no 4R-MYB genes were found through rice genome, neither in ''Japonica Group'' nor ''Indica Group''. However, a very special MYB gene [[Os07g0139500|'''''Os07g0139500''''']] with more than four MYB repeats  were identified by our ''RiceWiki Curation Team'' using NCBI BLASTP ('''Figure 4'''). And its particular '''5R-MYB'''-structure was further acknowledged by HMM Tools as well as [http://smart.embl-heidelberg.de/ SMART](Simple Modular Architecture Research Tool) ('''Figure 5'''). Of course, more molecular biological studies are required for confirming the existence of 5R-MYB genes in plants.
 
<br>[[File:Os07g0139500.png|center|thumb|1000px|'''Figure 4.''' ''Gene structure of Os07g0139500'' (Potential R5-MYB)]]
 
<br>[[File:Os07g0139500.png|center|thumb|1000px|'''Figure 4.''' ''Gene structure of Os07g0139500'' (Potential R5-MYB)]]
−
<br>[[File:Os07g0139500_HMM.jpg|center|thumb|1000px|'''Figure 5.''' ''The result of HMM search for Os07g0139500'']]
+
<br>[[File:Os07g0139500_SMART.png|center|thumb|1000px|'''Figure 5.''' ''The result of SMART for Os07g0139500'']]
−
<br>[[File:Os07g0139500_SMART.png|center|thumb|1000px|'''Figure 6.''' ''The result of SMART for Os07g0139500'']]
 
 
*'''Pfam: [http://pfam.janelia.org/family/PF00249 PF00249]'''    <font color=green>'''||'''</font>      '''InterPro: [http://www.ebi.ac.uk/interpro/entry/IPR001005 IPR001005]''' <font color=green>'''||'''</font>
 
*'''Pfam: [http://pfam.janelia.org/family/PF00249 PF00249]'''    <font color=green>'''||'''</font>      '''InterPro: [http://www.ebi.ac.uk/interpro/entry/IPR001005 IPR001005]''' <font color=green>'''||'''</font>
 +
 +
==''Japonica'' Group==
 +
{| style="background:#A1A3A6; width:85%;" border="0"
 +
|-style="background:white; color:black" align="center"
 +
!
 +
'''[[Os07g0139500]]'''
 +
||
 +
'''[[Os01g0841500]]'''
 +
||     
 +
'''[[Os12g0238000]]'''
 +
|| 
 +
'''[[Os05g0459000]]'''
 +
||
 +
'''[[Os05g0350900]]'''                           
 +
|-style="background:white; color:black" align="center"
 +
!
 +
'''[[Os07g0558100]]'''
 +
||
 +
'''[[Os02g0187700]]''' 
 +
||
 +
'''[[Os06g0637500]]''' 
 +
||
 +
'''[[Os12g0175400]]'''
 +
||
 +
'''[[Os09g0538400]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os11g0207600]]'''
 +
||
 +
'''[[Os10g0478300]]'''
 +
||
 +
'''[[Os08g0486300]]'''
 +
||
 +
'''[[Os01g0977300]]'''
 +
||
 +
'''[[Os07g0634900]]'''
 +
|-style="background:white; color:black" align="center"
 +
!
 +
'''[[Os07g0629000]]'''
 +
||
 +
'''[[Os09g0106700]]'''
 +
||
 +
'''[[Os07g0688200]]'''
 +
||
 +
'''[[Os03g0720800]]'''
 +
||
 +
'''[[Os05g0429900]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os08g0549000]]'''
 +
||
 +
'''[[Os01g0709000]]'''
 +
||
 +
'''[[Os01g0850400]]'''
 +
||
 +
'''[[Os04g0508500]]'''
 +
||
 +
'''[[Os02g0618400]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0874300]]'''
 +
||
 +
'''[[Os11g0684000]]'''
 +
||
 +
'''[[Os04g0461000]]'''
 +
||
 +
'''[[Os11g0180900]]'''
 +
||
 +
'''[[Os03g0142600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os02g0579300]]'''
 +
||
 +
'''[[Os08g0437200]]'''
 +
||
 +
'''[[Os08g0433400]]'''
 +
||
 +
'''[[Os07g0497500]]'''
 +
||
 +
'''[[Os12g0567300]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os03g0296000]]'''
 +
||
 +
'''[[Os04g0594100]]'''
 +
||
 +
'''[[Os01g0855400]]'''
 +
||
 +
'''[[Os09g0414300]]'''
 +
||
 +
'''[[Os06g0221000]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os05g0568200]]'''
 +
||
 +
'''[[Os02g0114800]]'''
 +
||
 +
'''[[Os11g0700500]]'''
 +
||
 +
'''[[Os04g0517100]]'''
 +
||
 +
'''[[Os11g0558200]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0285300]]'''
 +
||
 +
'''[[Os01g0637800]]'''
 +
||
 +
'''[[Os03g0578900]]'''
 +
||
 +
'''[[Os01g0128000]]'''
 +
||
 +
'''[[Os05g0140100]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0812000]]'''
 +
||
 +
'''[[Os06g0258000]]'''
 +
||
 +
'''[[Os01g0298400]]'''
 +
||
 +
'''[[Os08g0435700]]'''
 +
||
 +
'''[[Os02g0695200]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os06g0112700]]'''
 +
||
 +
'''[[Os03g0315400]]'''
 +
||
 +
'''[[Os08g0151300]]'''
 +
||
 +
'''[[Os03g0410000]]'''
 +
||
 +
'''[[Os02g0732600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os12g0125000]]'''
 +
||
 +
'''[[Os11g0128500]]'''
 +
||
 +
'''[[Os12g0515300]]'''
 +
||
 +
'''[[Os08g0428200]]'''
 +
||
 +
'''[[Os05g0490600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os09g0532900]]'''
 +
||
 +
'''[[Os01g0975300]]'''
 +
||
 +
'''[[Os02g0624300]]'''
 +
||
 +
'''[[Os01g0695900]]'''
 +
||
 +
'''[[Os01g0702700]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os09g0401000]]'''
 +
||
 +
'''[[Os04g0532800]]'''
 +
||
 +
'''[[Os06g0205100]]'''
 +
||
 +
'''[[Os01g0191900]]'''
 +
||
 +
'''[[Os06g0679400]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0305900]]'''
 +
||
 +
'''[[Os08g0248700]]'''
 +
||
 +
'''[[Os05g0553400]]'''
 +
||
 +
'''[[Os03g0771100]]'''
 +
||
 +
'''[[Os01g0722300]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os02g0786300]]'''
 +
||
 +
'''[[Os07g0627300]]'''
 +
||
 +
'''[[Os12g0572000]]'''
 +
||
 +
'''[[Os01g0142500]]'''
 +
||
 +
'''[[Os04g0549500]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os02g0271900]]'''
 +
||
 +
'''[[Os04g0348300]]'''
 +
||
 +
'''[[Os03g0325500]]'''
 +
||
 +
'''[[Os02g0174000]]'''
 +
||
 +
'''[[Os05g0442400]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os04g0600000]]'''
 +
||
 +
'''[[Os07g0685300]]'''
 +
||
 +
'''[[Os05g0449900]]'''
 +
||
 +
'''[[Os06g0664800]]'''
 +
||
 +
'''[[Os09g0299000]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0853700]]'''
 +
||
 +
'''[[Os08g0346400]]'''
 +
||
 +
'''[[Os02g0700300]]'''
 +
||
 +
'''[[Os02g0754400]]'''
 +
||
 +
'''[[Os05g0488600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0863300]]'''
 +
||
 +
'''[[Os07g0484700]]'''
 +
||
 +
'''[[Os05g0543600]]'''
 +
||
 +
'''[[Os09g0299200]]'''
 +
||
 +
'''[[Os06g0609500]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os07g0432800]]'''
 +
||
 +
'''[[Os02g0139000]]'''
 +
||
 +
'''[[Os04g0676700]]'''
 +
||
 +
'''[[Os07g0438800]]'''
 +
||
 +
'''[[Os01g0156000]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os06g0703900]]'''
 +
||
 +
'''[[Os04g0665600]]'''
 +
||
 +
'''[[Os03g0329900]]'''
 +
||
 +
'''[[Os05g0491500]]'''
 +
||
 +
'''[[Os06g0728700]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os04g0583900]]'''
 +
||
 +
'''[[Os03g0129800]]'''
 +
||
 +
'''[[Os01g0971800]]'''
 +
||
 +
'''[[Os02g0685200]]'''
 +
||
 +
'''[[Os03g0766500]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os02g0168200]]'''
 +
||
 +
'''[[Os08g0434700]]'''
 +
||
 +
'''[[Os10g0562100]]'''
 +
||
 +
'''[[Os04g0377932]]'''
 +
||
 +
'''[[Os12g0105600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0524500]]'''
 +
||
 +
'''[[Os06g0543200]]'''
 +
||
 +
'''[[Os05g0412000]]'''
 +
||
 +
'''[[Os01g0192300]]'''
 +
||
 +
'''[[Os05g0114700]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0844900]]'''
 +
||
 +
'''[[Os08g0157600]]'''
 +
||
 +
'''[[Os05g0195700]]'''
 +
||
 +
'''[[Os08g0160300]]'''
 +
||
 +
'''[[Os01g0589300]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os08g0426866]]'''
 +
||
 +
'''[[Os09g0395300]]'''
 +
||
 +
'''[[Os04g0566600]]'''
 +
||
 +
'''[[Os08g0151000]]'''
 +
||
 +
'''[[Os12g0586300]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os07g0119300]]'''
 +
||
 +
'''[[Os03g0764600]]'''
 +
||
 +
'''[[Os03g0624000]]'''
 +
||
 +
'''[[Os10g0561400]]'''
 +
||
 +
'''[[Os08g0159000]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os06g0162700]]'''
 +
||
 +
'''[[Os05g0589400]]'''
 +
||
 +
'''[[Os03g0750800]]'''
 +
||
 +
'''[[Os06g0670300]]'''
 +
||
 +
'''[[Os01g0603300]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0176700]]'''
 +
||
 +
'''[[Os01g0187900]]'''
 +
||
 +
'''[[Os06g0348800]]'''
 +
||
 +
'''[[Os08g0144000]]'''
 +
||
 +
'''[[Os03g0224200]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os01g0239000]]'''
 +
||
 +
'''[[Os05g0162800]]'''
 +
||
 +
'''[[Os06g0105800]]'''
 +
||
 +
'''[[Os02g0796500]]'''
 +
||
 +
'''[[Os06g0183100]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os02g0325600]]'''
 +
||
 +
'''[[Os01g0708000]]'''
 +
||
 +
'''[[Os12g0613300]]'''
 +
||
 +
'''[[Os02g0194000]]'''
 +
||
 +
'''[[Os09g0491660]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os02g0182100]]'''
 +
||
 +
'''[[Os05g0132700]]'''
 +
||
 +
'''[[Os06g0303700]]'''
 +
||
 +
'''[[Os07g0443500]]'''
 +
||
 +
'''[[Os11g0183700]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os07g0695900]]'''
 +
||
 +
'''[[Os08g0548000]]'''
 +
||
 +
'''[[Os12g0564100]]'''
 +
||
 +
'''[[Os02g0641300]]'''
 +
||
 +
'''[[Os12g0176600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os04g0480300]]'''
 +
||
 +
'''[[Os08g0510700]]'''
 +
||
 +
'''[[Os06g0181300]]'''
 +
||
 +
'''[[Os09g0124200]]'''
 +
||
 +
'''[[Os03g0388600]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os04g0110300]]'''
 +
||
 +
'''[[Os01g0193900]]'''
 +
||
 +
'''[[Os04g0348800]]'''
 +
||
 +
'''[[Os10g0443800]]'''
 +
||
 +
'''[[Os06g0647200]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os04g0593200]]'''
 +
||
 +
'''[[Os03g0241100]]'''
 +
||
 +
'''[[Os03g0840400]]'''
 +
||
 +
'''[[Os01g0367900]]'''
 +
||
 +
'''[[Os02g0551400]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[Os10g0444100]]'''
 +
||
 +
'''[[Os07g0136800]]'''
 +
||
 +
'''[[Os03g0773100]]'''
 +
||
 +
'''[[Os02g0706400]]'''
 +
||
 +
'''[[Os02g0776700]]''' 
 +
|}
 +
==''Indica'' Group==
 +
{| style="background:#A1A3A6; width:85%;" border="0"
 +
|-style="background:white; color:black" align="center"
 +
!
 +
'''[[BGIOSGA024846]]'''
 +
||
 +
'''[[BGIOSGA017917]]'''
 +
||     
 +
'''[[BGIOSGA018238]]'''
 +
|| 
 +
'''[[BGIOSGA020819]]'''
 +
||
 +
'''[[BGIOSGA029363]]'''                           
 +
|-style="background:white; color:black" align="center"
 +
!
 +
'''[[BGIOSGA001907]]'''
 +
||
 +
'''[[BGIOSGA034994]]''' 
 +
||
 +
'''[[BGIOSGA016822]]''' 
 +
||
 +
'''[[BGIOSGA031688]]'''
 +
||
 +
'''[[BGIOSGA018863]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA034924]]'''
 +
||
 +
'''[[BGIOSGA000003]]'''
 +
||
 +
'''[[BGIOSGA023865]]'''
 +
||
 +
'''[[BGIOSGA030245]]'''
 +
||
 +
'''[[BGIOSGA026525]]'''
 +
|-style="background:white; color:black" align="center"
 +
!
 +
'''[[BGIOSGA026430]]'''
 +
||
 +
'''[[BGIOSGA013471]]'''
 +
||
 +
'''[[BGIOSGA013472]]'''
 +
||
 +
'''[[BGIOSGA018002]]'''
 +
||
 +
'''[[BGIOSGA026527]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA004306]]'''
 +
||
 +
'''[[BGIOSGA000485]]'''
 +
||
 +
'''[[BGIOSGA004902]]'''
 +
||
 +
'''[[BGIOSGA035999]]'''
 +
||
 +
'''[[BGIOSGA014750]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA006030]]'''
 +
||
 +
'''[[BGIOSGA016547]]'''
 +
||
 +
'''[[BGIOSGA028729]]'''
 +
||
 +
'''[[BGIOSGA011479]]'''
 +
||
 +
'''[[BGIOSGA010658]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA008493]]'''
 +
||
 +
'''[[BGIOSGA026208]]'''
 +
||
 +
'''[[BGIOSGA028730]]'''
 +
||
 +
'''[[BGIOSGA010923]]'''
 +
||
 +
'''[[BGIOSGA010612]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA026935]]'''
 +
||
 +
'''[[BGIOSGA024270]]'''
 +
||
 +
'''[[BGIOSGA026529]]'''
 +
||
 +
'''[[BGIOSGA033532]]'''
 +
||
 +
'''[[BGIOSGA008700]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA010857]]'''
 +
||
 +
'''[[BGIOSGA035986]]'''
 +
||
 +
'''[[BGIOSGA014440]]'''
 +
||
 +
'''[[BGIOSGA004824]]'''
 +
||
 +
'''[[BGIOSGA030751]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA020382]]'''
 +
||
 +
'''[[BGIOSGA018239]]'''
 +
||
 +
'''[[BGIOSGA007254]]'''
 +
||
 +
'''[[BGIOSGA010900]]'''
 +
||
 +
'''[[BGIOSGA022168]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA025449]]'''
 +
||
 +
'''[[BGIOSGA014912]]'''
 +
||
 +
'''[[BGIOSGA012194]]'''
 +
||
 +
'''[[BGIOSGA033804]]'''
 +
||
 +
'''[[BGIOSGA002469]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA001872]]'''
 +
||
 +
'''[[BGIOSGA004072]]'''
 +
||
 +
'''[[BGIOSGA001460]]'''
 +
||
 +
'''[[BGIOSGA003345]]'''
 +
||
 +
'''[[BGIOSGA008698]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA020297]]'''
 +
||
 +
'''[[BGIOSGA004670]]'''
 +
||
 +
'''[[BGIOSGA019160]]'''
 +
||
 +
'''[[BGIOSGA022649]]'''
 +
||
 +
'''[[BGIOSGA028724]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA003060]]'''
 +
||
 +
'''[[BGIOSGA001461]]'''
 +
||
 +
'''[[BGIOSGA022169]]'''
 +
||
 +
'''[[BGIOSGA022174]]'''
 +
||
 +
'''[[BGIOSGA005798]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA022369]]'''
 +
||
 +
'''[[BGIOSGA036541]]'''
 +
||
 +
'''[[BGIOSGA027659]]'''
 +
||
 +
'''[[BGIOSGA005676]]'''
 +
||
 +
'''[[BGIOSGA036717]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA034582]]'''
 +
||
 +
'''[[BGIOSGA036092]]'''
 +
||
 +
'''[[BGIOSGA005283]]'''
 +
||
 +
'''[[BGIOSGA028709]]'''
 +
||
 +
'''[[BGIOSGA017818]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA029380]]'''
 +
||
 +
'''[[BGIOSGA036408]]'''
 +
||
 +
'''[[BGIOSGA006005]]'''
 +
||
 +
'''[[BGIOSGA004260]]'''
 +
||
 +
'''[[BGIOSGA024590]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA002218]]'''
 +
||
 +
'''[[BGIOSGA000952]]'''
 +
||
 +
'''[[BGIOSGA030727]]'''
 +
||
 +
'''[[BGIOSGA016820]]'''
 +
||
 +
'''[[BGIOSGA014443]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA020673]]'''
 +
||
 +
'''[[BGIOSGA012748]]'''
 +
||
 +
'''[[BGIOSGA028769]]'''
 +
||
 +
'''[[BGIOSGA002858]]'''
 +
||
 +
'''[[BGIOSGA004221]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA019054]]'''
 +
||
 +
'''[[BGIOSGA028296]]'''
 +
||
 +
'''[[BGIOSGA017601]]'''
 +
||
 +
'''[[BGIOSGA009746]]'''
 +
||
 +
'''[[BGIOSGA011155]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA004364]]'''
 +
||
 +
'''[[BGIOSGA009166]]'''
 +
||
 +
'''[[BGIOSGA029715]]'''
 +
||
 +
'''[[BGIOSGA030830]]'''
 +
||
 +
'''[[BGIOSGA026188]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA037216]]'''
 +
||
 +
'''[[BGIOSGA035973]]'''
 +
||
 +
'''[[BGIOSGA002421]]'''
 +
||
 +
'''[[BGIOSGA016880]]'''
 +
||
 +
'''[[BGIOSGA031610]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA016164]]'''
 +
||
 +
'''[[BGIOSGA037085]]'''
 +
||
 +
'''[[BGIOSGA004774]]'''
 +
||
 +
'''[[BGIOSGA035676]]'''
 +
||
 +
'''[[BGIOSGA012541]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA014710]]'''
 +
||
 +
'''[[BGIOSGA017964]]'''
 +
||
 +
'''[[BGIOSGA022651]]'''
 +
||
 +
'''[[BGIOSGA023696]]'''
 +
||
 +
'''[[BGIOSGA024398]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA017944]]'''
 +
||
 +
'''[[BGIOSGA007700]]'''
 +
||
 +
'''[[BGIOSGA023423]]'''
 +
||
 +
'''[[BGIOSGA000472]]'''
 +
||
 +
'''[[BGIOSGA017051]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA008875]]'''
 +
||
 +
'''[[BGIOSGA017965]]'''
 +
||
 +
'''[[BGIOSGA017828]]'''
 +
||
 +
'''[[BGIOSGA023422]]'''
 +
||
 +
'''[[BGIOSGA003347]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA004852]]'''
 +
||
 +
'''[[BGIOSGA030709]]'''
 +
||
 +
'''[[BGIOSGA030474]]'''
 +
||
 +
'''[[BGIOSGA021532]]'''
 +
||
 +
'''[[BGIOSGA026769]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA023251]]'''
 +
||
 +
'''[[BGIOSGA014092]]'''
 +
||
 +
'''[[BGIOSGA022508]]'''
 +
||
 +
'''[[BGIOSGA013008]]'''
 +
||
 +
'''[[BGIOSGA028511]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA005707]]'''
 +
||
 +
'''[[BGIOSGA005373]]'''
 +
||
 +
'''[[BGIOSGA007162]]'''
 +
||
 +
'''[[BGIOSGA024099]]'''
 +
||
 +
'''[[BGIOSGA002147]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA025605]]'''
 +
||
 +
'''[[BGIOSGA002364]]'''
 +
||
 +
'''[[BGIOSGA002307]]'''
 +
||
 +
'''[[BGIOSGA010547]]'''
 +
||
 +
'''[[BGIOSGA005602]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA027658]]'''
 +
||
 +
'''[[BGIOSGA023563]]'''
 +
||
 +
'''[[BGIOSGA014151]]'''
 +
||
 +
'''[[BGIOSGA002691]]'''
 +
||
 +
'''[[BGIOSGA012553]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA008295]]'''
 +
||
 +
'''[[BGIOSGA017810]]'''
 +
||
 +
'''[[BGIOSGA022653]]'''
 +
||
 +
'''[[BGIOSGA020501]]'''
 +
||
 +
'''[[BGIOSGA031479]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA014483]]'''
 +
||
 +
'''[[BGIOSGA011527]]'''
 +
||
 +
'''[[BGIOSGA003670]]'''
 +
||
 +
'''[[BGIOSGA010874]]'''
 +
||
 +
'''[[BGIOSGA000023]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA005828]]'''
 +
||
 +
'''[[BGIOSGA013627]]'''
 +
||
 +
'''[[BGIOSGA026931]]'''
 +
||
 +
'''[[BGIOSGA022565]]'''
 +
||
 +
'''[[BGIOSGA032091]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA031396]]'''
 +
||
 +
'''[[BGIOSGA022077]]'''
 +
||
 +
'''[[BGIOSGA015225]]'''
 +
||
 +
'''[[BGIOSGA031397]]'''
 +
||
 +
'''[[BGIOSGA036807]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA007863]]'''
 +
||
 +
'''[[BGIOSGA021086]]'''
 +
||
 +
'''[[BGIOSGA036796]]'''
 +
||
 +
'''[[BGIOSGA018058]]'''
 +
||
 +
'''[[BGIOSGA007064]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA028027]]'''
 +
||
 +
'''[[BGIOSGA002215]]'''
 +
||
 +
'''[[BGIOSGA004786]]'''
 +
||
 +
'''[[BGIOSGA028019]]'''
 +
||
 +
'''[[BGIOSGA018651]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA028704]]'''
 +
||
 +
'''[[BGIOSGA003871]]'''
 +
||
 +
'''[[BGIOSGA008860]]'''
 +
||
 +
'''[[BGIOSGA018757]]'''
 +
||
 +
'''[[BGIOSGA009489]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA016936]]'''
 +
||
 +
'''[[BGIOSGA028023]]'''
 +
||
 +
'''[[BGIOSGA037689]]'''
 +
||
 +
'''[[BGIOSGA027987]]'''
 +
||
 +
'''[[BGIOSGA007946]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA025055]]'''
 +
||
 +
'''[[BGIOSGA013620]]'''
 +
||
 +
'''[[BGIOSGA012704]]'''
 +
||
 +
'''[[BGIOSGA000304]]'''
 +
||
 +
'''[[BGIOSGA018896]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA005842]]'''
 +
||
 +
'''[[BGIOSGA031750]]'''
 +
||
 +
'''[[BGIOSGA008790]]'''
 +
||
 +
'''[[BGIOSGA017461]]'''
 +
||
 +
'''[[BGIOSGA009803]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA023442]]'''
 +
||
 +
'''[[BGIOSGA003931]]'''
 +
||
 +
'''[[BGIOSGA002879]]'''
 +
||
 +
'''[[BGIOSGA002232]]'''
 +
||
 +
'''[[BGIOSGA003928]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA021813]]'''
 +
||
 +
'''[[BGIOSGA022875]]'''
 +
||
 +
'''[[BGIOSGA020708]]'''
 +
||
 +
'''[[BGIOSGA027973]]'''
 +
||
 +
'''[[BGIOSGA012149]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA013477]]'''
 +
||
 +
'''[[BGIOSGA022752]]'''
 +
||
 +
'''[[BGIOSGA005436]]'''
 +
||
 +
'''[[BGIOSGA022430]]'''
 +
||
 +
'''[[BGIOSGA010126]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA004300]]'''
 +
||
 +
'''[[BGIOSGA021814]]'''
 +
||
 +
'''[[BGIOSGA021812]]'''
 +
||
 +
'''[[BGIOSGA007722]]'''
 +
||
 +
'''[[BGIOSGA021811]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA007015]]'''
 +
||
 +
'''[[BGIOSGA034932]]'''
 +
||
 +
'''[[BGIOSGA003668]]'''
 +
||
 +
'''[[BGIOSGA035841]]'''
 +
||
 +
'''[[BGIOSGA001193]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA006275]]'''
 +
||
 +
'''[[BGIOSGA001192]]'''
 +
||
 +
'''[[BGIOSGA002040]]'''
 +
||
 +
'''[[BGIOSGA025611]]'''
 +
||
 +
'''[[BGIOSGA016612]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA037090]]'''
 +
||
 +
'''[[BGIOSGA013148]]'''
 +
||
 +
'''[[BGIOSGA027652]]'''
 +
||
 +
'''[[BGIOSGA028510]]'''
 +
||
 +
'''[[BGIOSGA015321]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA028509]]'''
 +
||
 +
'''[[BGIOSGA026697]]'''
 +
||
 +
'''[[BGIOSGA022425]]'''
 +
||
 +
'''[[BGIOSGA015774]]'''
 +
||
 +
'''[[BGIOSGA035910]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA002937]]'''
 +
||
 +
'''[[BGIOSGA013976]]'''
 +
||
 +
'''[[BGIOSGA004060]]'''
 +
||
 +
'''[[BGIOSGA003044]]'''
 +
||
 +
'''[[BGIOSGA023368]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA032363]]'''
 +
||
 +
'''[[BGIOSGA035678]]'''
 +
||
 +
'''[[BGIOSGA012207]]'''
 +
||
 +
'''[[BGIOSGA025705]]'''
 +
||
 +
'''[[BGIOSGA019970]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA010548]]'''
 +
||
 +
'''[[BGIOSGA001075]]'''
 +
||
 +
'''[[BGIOSGA009478]]'''
 +
||
 +
'''[[BGIOSGA017963]]'''
 +
||
 +
'''[[BGIOSGA022099]]'''
 +
|-style="background:white; color:black" align="center"
 +
! 
 +
'''[[BGIOSGA021807]]'''
 +
||
 +
'''[[BGIOSGA022652]]'''
 +
||
 +
'''[[BGIOSGA017491]]'''
 +
||
 +
'''[[BGIOSGA011154]]'''
 +
||
 +
 +
|}
 +
==References==
 +
<references>
 +
* <ref name="ref1">
 +
Katiyar A, Smita S, Lenka S K, et al. Genome-wide classification and expression analysis of MYB transcription factor families in rice and Arabidopsis[J]. BMC genomics, 2012, 13(1): 544.
 +
</ref>
 +
* <ref name="ref2">
 +
Du H, Yang S S, Liang Z, et al. Genome-wide analysis of the MYB transcription factor superfamily in soybean[J]. BMC plant biology, 2012, 12(1): 106.
 +
</ref>
 +
* <ref name="ref3">
 +
Du H, Feng B R, Yang S S, et al. The R2R3-MYB transcription factor gene family in maize[J]. PloS one, 2012, 7(6): e37463.
 +
</ref>
 +
* <ref name="ref4">
 +
Jiang C, Gu X, Peterson T. Identification of conserved gene structures and carboxy-terminal motifs in the Myb gene family of Arabidopsis and Oryza sativa L. ssp. indica[J]. Genome biology, 2004, 5(7): R46.
 +
</ref>
 +
</references>

Latest revision as of 02:48, 16 July 2013

Brief Introduction

  • The MYB gene family is one of the largest groups of transcription facotrs in plants. MYB genes are classified into four major groups, including 1R-MYB, 2R-MYB, 3R-MYB and 4R-MYB with one, two, three and four MYB repeats, respectively[1][2][3][4]. Each repeat contains approximately 50–53 amino acids and forms a helix-turn-helix fold with three regularly spaced tryptophan residues[1][2][4]. Moreover, each repeat contains regularly spaced tryptophan residues, forming a tryptophan cluster in the 3-dimensional HTH structure[2][3].

Figure 1. Gene structure of Os05g0195700 (R1-MYB)
  • The R1R2R3-type MYB domain proteins with three MYB repeats are predominant in animals, while the most common type of MYB transcription factor in plants is R2R3-MYB with two MYB repeats[1][2][3].

Figure 2. Gene structure of BGIOSGA001907. (R2R3-MYB)

Figure 3. Gene structure of BGIOSGA017917. (R1R2R3-MYB)
  • Although some previous study suggested that MYB TFs in plants play a key role in secondary metabolism, hormone signal transduction, cellular morphogenesis, disease resistance and abiotic stress tolerance, the precise functions of most plant Myb genes are still rarely known[1][2][4].
  • So far, no 4R-MYB genes were found through rice genome, neither in Japonica Group nor Indica Group. However, a very special MYB gene Os07g0139500 with more than four MYB repeats were identified by our RiceWiki Curation Team using NCBI BLASTP (Figure 4). And its particular 5R-MYB-structure was further acknowledged by HMM Tools as well as SMART(Simple Modular Architecture Research Tool) (Figure 5). Of course, more molecular biological studies are required for confirming the existence of 5R-MYB genes in plants.

Figure 4. Gene structure of Os07g0139500 (Potential R5-MYB)

Figure 5. The result of SMART for Os07g0139500

Japonica Group

Os07g0139500

Os01g0841500

Os12g0238000

Os05g0459000

Os05g0350900

Os07g0558100

Os02g0187700

Os06g0637500

Os12g0175400

Os09g0538400

Os11g0207600

Os10g0478300

Os08g0486300

Os01g0977300

Os07g0634900

Os07g0629000

Os09g0106700

Os07g0688200

Os03g0720800

Os05g0429900

Os08g0549000

Os01g0709000

Os01g0850400

Os04g0508500

Os02g0618400

Os01g0874300

Os11g0684000

Os04g0461000

Os11g0180900

Os03g0142600

Os02g0579300

Os08g0437200

Os08g0433400

Os07g0497500

Os12g0567300

Os03g0296000

Os04g0594100

Os01g0855400

Os09g0414300

Os06g0221000

Os05g0568200

Os02g0114800

Os11g0700500

Os04g0517100

Os11g0558200

Os01g0285300

Os01g0637800

Os03g0578900

Os01g0128000

Os05g0140100

Os01g0812000

Os06g0258000

Os01g0298400

Os08g0435700

Os02g0695200

Os06g0112700

Os03g0315400

Os08g0151300

Os03g0410000

Os02g0732600

Os12g0125000

Os11g0128500

Os12g0515300

Os08g0428200

Os05g0490600

Os09g0532900

Os01g0975300

Os02g0624300

Os01g0695900

Os01g0702700

Os09g0401000

Os04g0532800

Os06g0205100

Os01g0191900

Os06g0679400

Os01g0305900

Os08g0248700

Os05g0553400

Os03g0771100

Os01g0722300

Os02g0786300

Os07g0627300

Os12g0572000

Os01g0142500

Os04g0549500

Os02g0271900

Os04g0348300

Os03g0325500

Os02g0174000

Os05g0442400

Os04g0600000

Os07g0685300

Os05g0449900

Os06g0664800

Os09g0299000

Os01g0853700

Os08g0346400

Os02g0700300

Os02g0754400

Os05g0488600

Os01g0863300

Os07g0484700

Os05g0543600

Os09g0299200

Os06g0609500

Os07g0432800

Os02g0139000

Os04g0676700

Os07g0438800

Os01g0156000

Os06g0703900

Os04g0665600

Os03g0329900

Os05g0491500

Os06g0728700

Os04g0583900

Os03g0129800

Os01g0971800

Os02g0685200

Os03g0766500

Os02g0168200

Os08g0434700

Os10g0562100

Os04g0377932

Os12g0105600

Os01g0524500

Os06g0543200

Os05g0412000

Os01g0192300

Os05g0114700

Os01g0844900

Os08g0157600

Os05g0195700

Os08g0160300

Os01g0589300

Os08g0426866

Os09g0395300

Os04g0566600

Os08g0151000

Os12g0586300

Os07g0119300

Os03g0764600

Os03g0624000

Os10g0561400

Os08g0159000

Os06g0162700

Os05g0589400

Os03g0750800

Os06g0670300

Os01g0603300

Os01g0176700

Os01g0187900

Os06g0348800

Os08g0144000

Os03g0224200

Os01g0239000

Os05g0162800

Os06g0105800

Os02g0796500

Os06g0183100

Os02g0325600

Os01g0708000

Os12g0613300

Os02g0194000

Os09g0491660

Os02g0182100

Os05g0132700

Os06g0303700

Os07g0443500

Os11g0183700

Os07g0695900

Os08g0548000

Os12g0564100

Os02g0641300

Os12g0176600

Os04g0480300

Os08g0510700

Os06g0181300

Os09g0124200

Os03g0388600

Os04g0110300

Os01g0193900

Os04g0348800

Os10g0443800

Os06g0647200

Os04g0593200

Os03g0241100

Os03g0840400

Os01g0367900

Os02g0551400

Os10g0444100

Os07g0136800

Os03g0773100

Os02g0706400

Os02g0776700

Indica Group

BGIOSGA024846

BGIOSGA017917

BGIOSGA018238

BGIOSGA020819

BGIOSGA029363

BGIOSGA001907

BGIOSGA034994

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References

  1. ↑ 1.0 1.1 1.2 1.3 Katiyar A, Smita S, Lenka S K, et al. Genome-wide classification and expression analysis of MYB transcription factor families in rice and Arabidopsis[J]. BMC genomics, 2012, 13(1): 544.
  2. ↑ 2.0 2.1 2.2 2.3 2.4 Du H, Yang S S, Liang Z, et al. Genome-wide analysis of the MYB transcription factor superfamily in soybean[J]. BMC plant biology, 2012, 12(1): 106.
  3. ↑ 3.0 3.1 3.2 Du H, Feng B R, Yang S S, et al. The R2R3-MYB transcription factor gene family in maize[J]. PloS one, 2012, 7(6): e37463.
  4. ↑ 4.0 4.1 4.2 Jiang C, Gu X, Peterson T. Identification of conserved gene structures and carboxy-terminal motifs in the Myb gene family of Arabidopsis and Oryza sativa L. ssp. indica[J]. Genome biology, 2004, 5(7): R46.
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