ORF1 - Revision history

Kaweh at 01:30, 30 May 2014

2014-05-30T01:30:28Z

Kaweh at 03:35, 29 May 2014

2014-05-29T03:35:54Z

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Kaweh at 04:07, 28 May 2014

2014-05-28T04:07:13Z

Kaweh: Created page with "Please input one-sentence summary here. ==Annotated Information== ===Function=== Chalk5, influences grain chalkiness, which also affects head rice yield and many other qualit..."

2014-05-28T03:38:30Z

Created page with "Please input one-sentence summary here. ==Annotated Information== ===Function=== Chalk5, influences grain chalkiness, which also affects head rice yield and many other qualit..."

New page

Please input one-sentence summary here.

==Annotated Information==
===Function===
Chalk5, influences grain chalkiness, which also affects head rice yield and many other quality traits. Chalk5 encodes a vacuolar H+-translocating pyrophosphatase (V-PPase) with inorganic pyrophosphate (PPi) hydrolysis and H+-translocation activity.Elevated expression of Chalk5 increases the chalkiness of the endosperm, putatively by disturbing the pH homeostasis of the endomembrane trafficking system in developing seeds, which affects the biogenesis of protein bodies and is coupled with a great increase in small vesicle-like structures, thus forming air spaces among endosperm storage substances and resulting in chalky grain.
[[File:Ng.2923-F2.jpg|center|]]

===Expression===
Two consensus nucleotide polymorphisms in the Chalk5 promoter in rice varieties might partly account for the differences in Chalk5 mRNA levels that contribute to natural variation in grain chalkiness.

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
Please input related labs here.

==References==
Li Yibo,Fan Chuchuan,Xing Yongzhong etc.Chalk5 encodes a vacuolar H+-translocating pyrophosphatase influencing grain chalkiness in rice,Nature Publishing Group, a division of Macmillan Publishers Limited. All Rights Reserved. 2014/04/46(4):1061-4036

==Structured Information==
{{IndicaGene|
GeneName = chalk5|
Description = Putative uncharacterized protein|
Definition = Oryza sativa Indica Group BGIOSGA000079, complete gene.|
tag = chalk5|
tid = BGIOSGA000079-TA|
pid = BGIOSGA000079-PA|
Length = 2622|
Source = Oryza sativa Indica Group

ORGANISM Oryza sativa Indica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Indica Chromosome 1|Chromosome 5]]|
AP = Chromosome 5:46289509..46292130|
CDS = 46291834..46292130,46291618..46291722,46291453..46291526,46291309..46291367,46290712..46290749<br>,46290433..46290553,46290270..46290338,46290093..46290175,46289861..46289929<br>,46289709..46289771,46289509..46289622|
GCID =</Ng.2923-F1.jpg>
name=IndicaChromosome01:46289509..46292130
source=RiceIndica01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=IndicaChromosome01:46289509..46292130
source=RiceIndica01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>ATGGCGGCACACTCCCACGTCATCCCCTTCCTCTCCCCGGCGGCGACGTCCGCGCGCTGCTCCCCCTACGGCCACCGCCGCCGCGGCCGCGCGGGGCTCCTGCGGTGCGCGGCGGCGGCGGGGCAGGCGGGGTTCTTCACCCGCCTGGGACGCCTCATCCAGGAGAAGGCCAAGAGCGACGTCGAGAAGCTCTTCTCCGGCTTCTCCAAGACCCGCGAGAGCCTCTCCGTCGTCGACGAGCTCCTCACCTACTGGAACCTCGCCGACACCGACCGCGTCCTCGACGAGCTCGAGGAGGCTCTGCTGGTGTCGGATTTTGGCCCCAAGATTTCGTTCCGGATCGTGGACACTCTACGCGAGGAAATCCGCGATGGCAAGCTCAAGTCTGGGGCTGAGATAAAGGAAGCGCTGAAAAGGTGTATTCTTGAACTGCTGACGAGCAAAGGCGGCAATCCGGAGCTGCAGCTCGGTTTCAGAAAGCCGGCAGTTATCATGATTGTGGGAGTGAATGGAGGTGGAAAGACTACCTCATTAGGAAAACTTGCTTACAGATTCAAGAATGAAGGAGTGAAGGTATTGATGGCAGCAGGTGATACCTTCAGAGCAGCAGCTCGTGACCAGCTAGAAGTTTGGGCAGAGAGAACAGGTTCAGAGATTGTTATCGATAATGATAAGAAAGCAAAACCTGCATCAGTTCTCTCGCAGGCAGTGAAGCGCGGGAAGCGTGAAGGATTTGATCTTGTTCTTTGCGACACGTCAGGACGACTTCATACAAATTATGGTCTGATGGAAGAATTGGTTTCCTGCAAGAAAGTCATAGCTAAAGCCCTTCCGGGTGCTCCTAATGAGATCTTGCTGGTTCTGGATGGCACGACTGGCTTGAATATGCTACAACAAGCGAGGGAGTTCAATGATGTTGTTGGAGTCACAGGATTCGTCCTAACAAAGCTTGATGGAACTGCTCGTGGTGGTTGTGTGGTTAGCGTTGTAGATGAACTTGGAATTCCAGTAAAGTTTATTGGTGTTGGTGAAGGGATGGAGGATCTTCAGCCTTTTGATGCTGAGGCATTTGTTGAAGCCATTTTTCCTTGA</cdnaseq>|
AA = <aaseq>MAAHSHVIPFLSPAATSARCSPYGHRRRGRAGLLRCAAAAGQAGFFTRLGRLIQEKAKSDVEKLFSGFSKTRESLSVVDELLTYWNLADTDRVLDELEEALLVSDFGPKISFRIVDTLREEIRDGKLKSGAEIKEALKRCILELLTSKGGNPELQLGFRKPAVIMIVGVNGGGKTTSLGKLAYRFKNEGVKVLMAAGDTFRAAARDQLEVWAERTGSEIVIDNDKKAKPASVLSQAVKRGKREGFDLVLCDTSGRLHTNYGLMEELVSCKKVIAKALPGAPNEILLVLDGTTGLNMLQQAREFNDVVGVTGFVLTKLDGTARGGCVVSVVDELGIPVKFIGVGEGMEDLQPFDAEAFVEAIFP</aaseq>|
DNA = <dnaseqindica>1..297#409..513#605..678#764..822#1382..1419#1578..1698#1793..1861#1956..2038#2202..2270#2360..2422#2509..2622#GATATTACTTTTCACTCCAACAGATCATCCATATTACATCCTCCATATACCAACATCCTA
TATTTTACTAATATTTTACAATTACCACATATTTATCACCACTCTAAAAAAAAAAACTCC
CCCCTTTATCTCTTCGTCTCCGCCGATCTCCCCACCTCTCTCTCTTCGGACTTCTCTACC
GCCGGCGCCGAGAGGACGGGGAGGACGAGGGCCGACCGGAGGGGCGGCGCGGTCGGAGGA
GCGGCTAGGCGGAGGGGTGGAGGAGCGGCGCAAGGGGCGGCCGGCGGGAGGCGACTGCCG
GGTCCATCTCCCTCCTCCTCCCGCCGAGTCCATCTCCCTCCTCCCGGCGTGTCCATCTCC
CCACTGCCAGATCCGCGGAGGAGGGGCGGCGCAGGCGGCGGAGGAGCGGCGGGGCAGAGG
GGCGGCGGGGTCAGAGGAGCGGCGGCGCGGGTGGAGACCCCGAGCGGCGGGGACGGCGGC
GACCTCACTGCTAGATCCGCTGCCTCTCCGCCTCTACTCCGGCGATCTCCACCTCTAAAT
CTGTTGGCCTGCAGGTGGTGGTCGGGTCGATGGCGGCGCAAGAAGCAGGTGATGCCCCGG
CGAGCATCACGGGGCCATGCTCGCGTACAGGAGACAAGAAGGCGTGCGTGGAGTTGTTGT
CGGGCATCCCGGAGGCCCGGAAGGCGACGACGGTGGGCCCCCTCGCGGAGCTGTACCTGC
AGGCAATCGCCAACCACACGACGGAGGCCAAGGCGATGGCTACCAAGCTGCTAGCCACCA
TGAAGGGGAAGGGCGTGCCACCCGTGTGCCTCCAGCAGTGCACCGCCAGCGTCGACACCC
TCTCCAACGCCCTCGCCGCCTTCTTCTCTGCCTCCGCCGACGTCAACAAAAAGTACAGGG
ACTTGGACGGTTTTCTCGTGGGCTTTCTTAAACAACCGCCCATCTGCATGAGCGCGTGCC
CCATCCGGTCGTGCGATATGGAAGAGGTCACTATCGCCGACAAGTTCCACCAAGCCTGGA
AGATGTTGGGTGTCGCACACGACCTCATCACGCAGATCCTAGGCACAAAGTCCTAGATAC
ATTAAGGGGCGGATCCATAACAAGATTTAAGGGGAGGACTCGTGATCTCTTTCTTCCTTG
TTCAGTCCTCTCTACTTTTCATTTTCTCTCTATTTTTCCCCCTTTCATTTCCCCTTCTAC
CAATGGTGGTCCAGCGGGATAGGGGGGACTCGAGTCCCCCTAGCACCCACGTTGGATCCG
CCCCTGGATACGTTTTATATGTTGGACATTTTGATTTGCCATCCTACTACCAGAATTTAC
CTATCAAATAAATCTTTCTAGGTTAGCAACCCAAATACTTCCTTACAACTGTTTTTTTTA
TTTATTTTGACGGGTGCGCATGTGTCTGTTCCCACCTCCAATCGAGGAATAGGAATTTTT
ATCATACCAGTGTGGGTATTATTGTTATATACTCCTATGTTGTTGAAATAACTGAGATCG
TTATTTTTAAGATGTGCACATTGTAACTATTTCTATGGGGAGAATGATTTCTAT</dnaseqindica>|
Link = [http://plants.ensembl.org/Oryza_indica/Gene/Summary?g=BGIOSGA000079 EnsemblPlants:BGIOSGA000079]|
}}
[[Category:Genes]]
[[Category:Indica mRNA]]
[[Category:Oryza Sativa Indica Group]]
[[Category:Indica Genes]]
[[Category:Indica Chromosome 1]]
[[Category:Chromosome 1]]

@@ Line 106: / Line 106: @@
 </gbrowseImage2>|
 Link=http://cdna01.dna.affrc.go.jp/cDNA/
-CDNA = <cdnaseq>ATGGCGGCACACTCCCACGTCATCCCCTTCCTCTCCCCGGCGGCGACGTCCGCGCGCTGCTCCCCCTACGGCCACCGCCGCCGCGGCCGCGCGGGGCTCCTGCGGTGCGCGGCGGCGGCGGGGCAGGCGGGGTTCTTCACCCGCCTGGGACGCCTCATCCAGGAGAAGGCCAAGAGCGACGTCGAGAAGCTCTTCTCCGGCTTCTCCAAGACCCGCGAGAGCCTCTCCGTCGTCGACGAGCTCCTCACCTACTGGAACCTCGCCGACACCGACCGCGTCCTCGACGAGCTCGAGGAGGCTCTGCTGGTGTCGGATTTTGGCCCCAAGATTTCGTTCCGGATCGTGGACACTCTACGCGAGGAAATCCGCGATGGCAAGCTCAAGTCTGGGGCTGAGATAAAGGAAGCGCTGAAAAGGTGTATTCTTGAACTGCTGACGAGCAAAGGCGGCAATCCGGAGCTGCAGCTCGGTTTCAGAAAGCCGGCAGTTATCATGATTGTGGGAGTGAATGGAGGTGGAAAGACTACCTCATTAGGAAAACTTGCTTACAGATTCAAGAATGAAGGAGTGAAGGTATTGATGGCAGCAGGTGATACCTTCAGAGCAGCAGCTCGTGACCAGCTAGAAGTTTGGGCAGAGAGAACAGGTTCAGAGATTGTTATCGATAATGATAAGAAAGCAAAACCTGCATCAGTTCTCTCGCAGGCAGTGAAGCGCGGGAAGCGTGAAGGATTTGATCTTGTTCTTTGCGACACGTCAGGACGACTTCATACAAATTATGGTCTGATGGAAGAATTGGTTTCCTGCAAGAAAGTCATAGCTAAAGCCCTTCCGGGTGCTCCTAATGAGATCTTGCTGGTTCTGGATGGCACGACTGGCTTGAATATGCTACAACAAGCGAGGGAGTTCAATGATGTTGTTGGAGTCACAGGATTCGTCCTAACAAAGCTTGATGGAACTGCTCGTGGTGGTTGTGTGGTTAGCGTTGTAGATGAACTTGGAATTCCAGTAAAGTTTATTGGTGTTGGTGAAGGGATGGAGGATCTTCAGCCTTTTGATGCTGAGGCATTTGTTGAAGCCATTTTTCCTTGA</cdnaseq>|
+CDNA = <cdnaseq></cdnaseq>|
-AA = <aaseq>MAAHSHVIPFLSPAATSARCSPYGHRRRGRAGLLRCAAAAGQAGFFTRLGRLIQEKAKSDVEKLFSGFSKTRESLSVVDELLTYWNLADTDRVLDELEEALLVSDFGPKISFRIVDTLREEIRDGKLKSGAEIKEALKRCILELLTSKGGNPELQLGFRKPAVIMIVGVNGGGKTTSLGKLAYRFKNEGVKVLMAAGDTFRAAARDQLEVWAERTGSEIVIDNDKKAKPASVLSQAVKRGKREGFDLVLCDTSGRLHTNYGLMEELVSCKKVIAKALPGAPNEILLVLDGTTGLNMLQQAREFNDVVGVTGFVLTKLDGTARGGCVVSVVDELGIPVKFIGVGEGMEDLQPFDAEAFVEAIFP</aaseq>|
+AA = <aaseq></aaseq>|
 DNA = <dnaseqindica>
 agggaggaga gctcgctcgc tcgctcgctc gtgctcgtca atggcgggta gggtttcgcc

@@ Line 15: / Line 15: @@
 ==Labs working on this gene==
-Please input related labs here.
+callus
 ==References==
@@ Line 22: / Line 23: @@
 ==Structured Information==
 {{IndicaGene|
-GeneName = chalk5|
+GeneName = ORF1|
 Description = Putative uncharacterized protein|
-Definition = Oryza sativa Indica Group BGIOSGA000079, complete gene.|
+Definition = Oryza sativa Japonica Group DNA, chromosome 11, complete sequence,cultivar: Nipponbare.|
 tag = chalk5|
 tid = BGIOSGA000079-TA|
 pid = BGIOSGA000079-PA|
-Length = 2622|
+Length = 1554|
 Source = Oryza sativa Indica Group
@@ Line 51: / Line 52: @@
 CDNA = <cdnaseq>ATGGCGGCACACTCCCACGTCATCCCCTTCCTCTCCCCGGCGGCGACGTCCGCGCGCTGCTCCCCCTACGGCCACCGCCGCCGCGGCCGCGCGGGGCTCCTGCGGTGCGCGGCGGCGGCGGGGCAGGCGGGGTTCTTCACCCGCCTGGGACGCCTCATCCAGGAGAAGGCCAAGAGCGACGTCGAGAAGCTCTTCTCCGGCTTCTCCAAGACCCGCGAGAGCCTCTCCGTCGTCGACGAGCTCCTCACCTACTGGAACCTCGCCGACACCGACCGCGTCCTCGACGAGCTCGAGGAGGCTCTGCTGGTGTCGGATTTTGGCCCCAAGATTTCGTTCCGGATCGTGGACACTCTACGCGAGGAAATCCGCGATGGCAAGCTCAAGTCTGGGGCTGAGATAAAGGAAGCGCTGAAAAGGTGTATTCTTGAACTGCTGACGAGCAAAGGCGGCAATCCGGAGCTGCAGCTCGGTTTCAGAAAGCCGGCAGTTATCATGATTGTGGGAGTGAATGGAGGTGGAAAGACTACCTCATTAGGAAAACTTGCTTACAGATTCAAGAATGAAGGAGTGAAGGTATTGATGGCAGCAGGTGATACCTTCAGAGCAGCAGCTCGTGACCAGCTAGAAGTTTGGGCAGAGAGAACAGGTTCAGAGATTGTTATCGATAATGATAAGAAAGCAAAACCTGCATCAGTTCTCTCGCAGGCAGTGAAGCGCGGGAAGCGTGAAGGATTTGATCTTGTTCTTTGCGACACGTCAGGACGACTTCATACAAATTATGGTCTGATGGAAGAATTGGTTTCCTGCAAGAAAGTCATAGCTAAAGCCCTTCCGGGTGCTCCTAATGAGATCTTGCTGGTTCTGGATGGCACGACTGGCTTGAATATGCTACAACAAGCGAGGGAGTTCAATGATGTTGTTGGAGTCACAGGATTCGTCCTAACAAAGCTTGATGGAACTGCTCGTGGTGGTTGTGTGGTTAGCGTTGTAGATGAACTTGGAATTCCAGTAAAGTTTATTGGTGTTGGTGAAGGGATGGAGGATCTTCAGCCTTTTGATGCTGAGGCATTTGTTGAAGCCATTTTTCCTTGA</cdnaseq>|
 AA = <aaseq>MAAHSHVIPFLSPAATSARCSPYGHRRRGRAGLLRCAAAAGQAGFFTRLGRLIQEKAKSDVEKLFSGFSKTRESLSVVDELLTYWNLADTDRVLDELEEALLVSDFGPKISFRIVDTLREEIRDGKLKSGAEIKEALKRCILELLTSKGGNPELQLGFRKPAVIMIVGVNGGGKTTSLGKLAYRFKNEGVKVLMAAGDTFRAAARDQLEVWAERTGSEIVIDNDKKAKPASVLSQAVKRGKREGFDLVLCDTSGRLHTNYGLMEELVSCKKVIAKALPGAPNEILLVLDGTTGLNMLQQAREFNDVVGVTGFVLTKLDGTARGGCVVSVVDELGIPVKFIGVGEGMEDLQPFDAEAFVEAIFP</aaseq>|
-DNA = <dnaseqindica>1..297#409..513#605..678#764..822#1382..1419#1578..1698#1793..1861#1956..2038#2202..2270#2360..2422#2509..2622#GATATTACTTTTCACTCCAACAGATCATCCATATTACATCCTCCATATACCAACATCCTA
+DNA = <dnaseqindica>
 TATTTTACTAATATTTTACAATTACCACATATTTATCACCACTCTAAAAAAAAAAACTCC
 CCCCTTTATCTCTTCGTCTCCGCCGATCTCCCCACCTCTCTCTCTTCGGACTTCTCTACC