Os05g0405000 - Revision history

Liman at 09:37, 16 October 2016

2016-10-16T09:37:37Z

Liman: /* Expression */

2016-10-16T09:37:11Z

‎Expression

Liman: /* Mutation */

2016-10-16T09:36:57Z

‎Mutation

Liman: /* Mutation */

2016-10-16T09:36:44Z

‎Mutation

Liman at 09:35, 16 October 2016

2016-10-16T09:35:57Z

Liman at 13:14, 15 October 2016

2016-10-15T13:14:21Z

192.168.72.52 at 08:29, 14 May 2015

2015-05-14T08:29:04Z

Show changes

124.16.129.48 at 20:10, 22 July 2012

2012-07-22T20:10:08Z

127.0.0.1: Created page with "{{JaponicaGene| GeneName = Os05g0405000| Description = Orthophosphate dikinase precursor (EC 2.7.9.1)| Version = NM_001062042.1 GI:115463814 GeneID:4338750| Length = 19162..."

2012-06-24T10:21:01Z

Created page with "{{JaponicaGene| GeneName = Os05g0405000| Description = Orthophosphate dikinase precursor (EC 2.7.9.1)| Version = NM_001062042.1 GI:115463814 GeneID:4338750| Length = 19162..."

New page

{{JaponicaGene|
GeneName = Os05g0405000|
Description = Orthophosphate dikinase precursor (EC 2.7.9.1)|
Version = NM_001062042.1 GI:115463814 GeneID:4338750|
Length = 19162 bp|
Definition = Oryza sativa Japonica Group Os05g0405000, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:19725353..19744514|
CDS = 19725598..19725640,19725722..19725813,19725901..19725978,19726153..19726290,19726536..19726664<br>,19726947..19727076,19727229..19727406,19727773..19727911,19728089..19728178<br>,19728318..19728479,19728614..19728778,19728967..19729104,19729715..19729894<br>,19730187..19730315,19730500..19730735,19730853..19731015,19732474..19732611<br>,19732728..19732961,19733067..19733123,19743931..19744155|
GCID = <gbrowseImage1>
name=NC_008398:19725353..19744514
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:19725353..19744514
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atgccgtcggtttcgagggccgtgtgcgtgcagagggcgagcgggaataacggcaggaggtgcagagatggggcggccgccgccggccgccgatccgtcgtggcgcagagagcgcggcacggcaagccggaggtcgccatccgctcggggtccggcggctcggcgcggggcgggcattgctcgcctctcagggcagtggcggcgccgatcccgactaccaaaaagagggtgttccacttcggcaagggcaagagcgagggcaacaaggccatgaaggacctgctgggagggaagggggcgaacttggcggagatggcgagcatcgggctgtcggtgccgccggggttcacggtgtcgacggaggcgtgccagcagtaccaggcggcggggaagacgctgccggcggggctgtgggaggagatcgtcgaggggctccagtgggtggaggagtacatggcggcgcgcctcggcgaccccgcccgccctctcctcctctccgtccgctccggcgccgccgtgtcgatgccggggatgatggacacggtgctgaacctggggctgaacgacgaggtggcggcgggactggcggccaagagcggcgaccgcttcgcgtacgactcctaccgccgtttcctcgacatgttcggcaacgtggtcatggacattcctcatgcactgttcgaggagaagctcgaagccatgaaagcagtcaaggggctgcacaacgacactgacctgactgccactgacctcaaagaactagtggcacagtacaaggatgtctatgttgaagctaagggagagccatttccctctgatcccaagaagcaactgcagctggccgtgttggccgtgttcaactcatgggatagcccaagagcaatcaagtacagaagcataaacaagatcactgggctgaagggcactgctgtaaacgtgcagaccatggtgtttggaaacatggggaacacctctggcacgggtgtgctcttcactaggaacccaagcactggagagaagaagctttacggcgaattccttgtgaatgctcagggtgaagatgtggttgctggaatcagaactccagaggatcttgatgctatgagggaccacatgccggagccttatgaagagctcgttgagaactgcaaaattttggagagtcactataaagaaatgatggatattgaatttactgttcaggaaaataggctttggatgcttcagtgcagaacaggaaagcgcacaggaaaaggtgctgtaaagattgctgtagacatggttaacgagggccttgttgagcgccgcacagcacttaagatggtagaaccaggtcacctggatcagcttcttcatcctcagtttgagaacccatcagggtataaagacaaagttattgccacgggcttacctgcatcacctggggctgctgtgggccaaattgtattcactgccgaggatgctgaagcatggcatgcccaagggaaagatgttattctggtgaggacagagaccagcccagaggatgttggtggcatgcatgcagctgttggaattcttacagcaagaggtggtatgacctctcacgctgctgttgttgcgcgcggatggggcaaatgttgtgtgtcaggatgctcaagcgtccgtgtaaatgatgcgtccaagattgtagtgattgaagacaaggcgctgcatgaaggtgagtggctatcgttgaatggatcaactggtgaagtgatcattggcaagcagccactctgcccaccagcccttagtggtgatttggaaactttcatgtcttgggtggatgaagttaggaaactcaaggttatggcaaatgctgatacccccgaggatgcaacaacagccagacagaatggggcagaaggaattgggctatgccggactgaacatatgttcttcgcttcagacgagaggattaaggctgtcaggcagatgattatggcttcaagtcttgaactgaggcagaaagcactagatcgccttttgccttatcagaggtctgactttgaaggcatcttccgtgcaatggatgggcttccggtaactattagactcttggatcctccacttcatgagttccttccagaaggccatgttgaggatatggtgcgtgagctatgctctgaaactggagcagctcaggatgatgtccttgcaagagtagaaaaactttccgaagtaaatccaatgcttggtttccgtgggtgcaggcttggtatatcataccctgaattgactgaaatgcaagcccgtgccatctttgaagctgctataaccatgaccaaccagggtattcaagtctttccggagataatggttccccttgttggaactcctcaggaattggggcatcaagtggatgttatccgtcaaattgccaacaaggtgttcacagacatgggaaaaactattggctacaaagttggaactatgattgaaattcccagggcagctttagtggctgatgagatagcagagcaggctgagttcttctcctttggaacaaacgacctaacacagatgacatttggttacagtagggatgatgtggggaagttccttcccatctatctgtctcagggtatcctccagcatgacccctttgaggtgcttgatcagaggggagttggggagctggttaagctggctacagagagaggccgcaaagctaggcctaacttgaaggtgggcatctgtggtgaacatggtggagagcctctgtcagtcgctttctttgcgaaggctgggctggactatgtttcttgttcgcctttcagggtcccaattgctaggctagctgcagctcaggtgctcctctga</cdnaseq>|
AA = <aaseq>MPSVSRAVCVQRASGNNGRRCRDGAAAAGRRSVVAQRARHGKPE VAIRSGSGGSARGGHCSPLRAVAAPIPTTKKRVFHFGKGKSEGNKAMKDLLGGKGANL AEMASIGLSVPPGFTVSTEACQQYQAAGKTLPAGLWEEIVEGLQWVEEYMAARLGDPA RPLLLSVRSGAAVSMPGMMDTVLNLGLNDEVAAGLAAKSGDRFAYDSYRRFLDMFGNV VMDIPHALFEEKLEAMKAVKGLHNDTDLTATDLKELVAQYKDVYVEAKGEPFPSDPKK QLQLAVLAVFNSWDSPRAIKYRSINKITGLKGTAVNVQTMVFGNMGNTSGTGVLFTRN PSTGEKKLYGEFLVNAQGEDVVAGIRTPEDLDAMRDHMPEPYEELVENCKILESHYKE MMDIEFTVQENRLWMLQCRTGKRTGKGAVKIAVDMVNEGLVERRTALKMVEPGHLDQL LHPQFENPSGYKDKVIATGLPASPGAAVGQIVFTAEDAEAWHAQGKDVILVRTETSPE DVGGMHAAVGILTARGGMTSHAAVVARGWGKCCVSGCSSVRVNDASKIVVIEDKALHE GEWLSLNGSTGEVIIGKQPLCPPALSGDLETFMSWVDEVRKLKVMANADTPEDATTAR QNGAEGIGLCRTEHMFFASDERIKAVRQMIMASSLELRQKALDRLLPYQRSDFEGIFR AMDGLPVTIRLLDPPLHEFLPEGHVEDMVRELCSETGAAQDDVLARVEKLSEVNPMLG FRGCRLGISYPELTEMQARAIFEAAITMTNQGIQVFPEIMVPLVGTPQELGHQVDVIR QIANKVFTDMGKTIGYKVGTMIEIPRAALVADEIAEQAEFFSFGTNDLTQMTFGYSRD DVGKFLPIYLSQGILQHDPFEVLDQRGVGELVKLATERGRKARPNLKVGICGEHGGEP LSVAFFAKAGLDYVSCSPFRVPIARLAAAQVLL</aaseq>|
DNA = <dnaseqindica>18875..18917#18702..18793#18537..18614#18225..18362#17851..17979#17439..17568#17109..17286#16604..16742#16337..16426#16036..16197#15737..15901#15411..15548#14621..14800#14200..14328#13780..14015#13500..13662#11904..12041#11554..11787#11392..11448#360..584#cgattggggcgcttgtgaacaccggggcgccacgtggagaggacgttacactccagccgccaaatttccactcccacacccgcgctcccctcccctctcttttccgtgatcgcacctcgcccacgcgccccccgccacacacaatctctgcagctctccagcttcgttggaactcgcgaatctctctccgatcccaggtaaagcagcgaacgacgtcacgcacgacgctgctcggtggatttcgttccttgctggggaaaaccatgcagagacgaaggtgaatgatctgcttttgtgtacttgcgtttaccaggtgaagcgcgagcttggagttggaggggagatcgatcagggccaggatgccgtcggtttcgagggccgtgtgcgtgcagagggcgagcgggaataacggcaggaggtgcagagatggggcggccgccgccggccgccgatccgtcgtggcgcagagagcgcggcacggcaagccggaggtcgccatccgctcggggtccggcggctcggcgcggggcgggcattgctcgcctctcagggcagtggcggcgccgatcccgactaccaaaaaggtaaaccgtgcatgccgcagctcctcgttcgttcgttggctcgcgcgcgcgattgctgtgtttgacacaccgttgactctcgatcgtgcgagcatctatcactcactggttcgactcgcatgcgtattgacgtataggagctcggaacacaccatcgtatagctcacgaggtagcactgtagcggggatatgcgtggttggccagcccattgagccacataaggcccatttttttctacacacttgaattcaatccggccctatggttggcactgtctctcatttatttatttactcctttatttagaggatgcgcagatgcatgcgttcaacatcttttagggacggagtacatatttagattcacacgtgtgatattggaagtgcgggcttgtgtgacgctgtatccttgcactataaaaaaacatctctgctactagtaggtcataaccggcatcattgttggtttttaaactggcagtgtgctaccgacaatgatacgattggtttagggtgtgaaccaatagtgatatatggagcataactgttaattctacttacaaacaaacatacagtgattttgaacgctccaaaaatatatatgcaatgccaatagatttgttgatttgcattcaccgatccaacaaacaacttcatttcattcatcaatctaacaatcaaaagtttgtaacaaattcacttcatttcaccaatccaacaatgtggtttcattgattgatcaacaatagaataaagtgtaactttggtgtgatgaacaacagctagcagaacaatttctttccagaaaatttttattgcatcatgcagcttctaaaaatagataaaagattgctcatgcatctcttctcctcatcaccttcaaagatgtagaaggtagcagaggagcacatcggttgataataatgtagatggcactgttagttgatgttgttgagcttgtgtccctgttggcaaatcaagtaagcacaacccccctcccccccaccctccataggatttggtccaagcttgggatgaccagatataattccacatagcctcatctctatcgcatgttgttgttaaacataccatgcgacgtccgcctccattgctttgtaggtatttgccgcgttggacagggaccgatgtcatcgagatccactcttaatcctgagagtatgaaggcatggaagggggcctccaccaccacctgcctaacgagattgaggtggtggcctatgggctagatccccctccccccttccaagcagcaagctcgtggcatgctatccgatcaaaggggagcaaggcggtggccccttgttcggagagtaaggaagtgacggcacatcagttggagggtagagagacggcacactgtgcatgaggagagagggagggaaaataccaacagtggtactatcattatcaatttatatcctaaattatttgtaaaaagagtacaactacatgttctaaatgagataaacctgcagatattggaaatgatgcatttaggtccacatgatgtgatgatagttgttctttgttcagtttggttagcatacagatagatatcgacaatatttttttaaagataatgaaagctacagccaattatacatacagaagttgctagtcaaatcaccgcaaattacaagatcacagcttgacaaaaacaagaaagcaacttagaatatcaacctaaggacatacacataaaacacctattgctaaaattcatttatgattaacaagaatctgtataaccaagggtagagatgggagaagactgctagggctgcaaccctactcttaagtctaaatatccattagaattgcactataaaattaaaaaaaaaatgggacaaagttatgtaaattatattagctgagccctaagcttagaagaattctggttctaccatagcataaccatttgttttggctaccaatgactgtttataaagattatcatcgattagggaaaaaggaaacaaaagtatgcaaataaatgataataaatcaactctctagttgagtagctaggctcataggtgcaaactgctgaaagcttaatcattccatcatttggaatcttgggggtaagacaaactgtaatgactctatctatatagagctagtgactcccaatcaatttggtaggctttctagttaccttagatatttctactttttatcatgcacttcacagaggcatctcagattctggattgccaagcccatggtttcaccaaaaccagaaaaacagatacagttatatgcaaagattttttttttcatcagtcccagactcccagtacatcaagaatgtgaacggaatcgagcctggaatccatggtgagacagggaccgaattcatcttagcaatctagcaacttgattaagcatttaagccggtaagctcgaccattaggcaagtggacaaggttgtgatcacgcaagtaaataaaaactataggatttaagtacttttcgccgcggctaaatccaagtgatcacgggccctttgacagcaatctagccaattagcacggaggtgtatcaacacatgcatgaatggaatatatttctccctggtgcagagaggttcatttcacttggcatcatcacggacctaagcaaacattaggggcatatgctacgaaattcttgtctgtccatcaaatgtttggtagcaataatattcccatgttcactcgtgcatattgctaattttgttgttttgttgacgtttaactcaaatcatggtttctataagttacttcatggtattttgaggaactaccaaatcatggtgaatcatatatgatcgaactaccaaatcggccgacagtgcaatatacatggttctgttctctggttttgcccctagttcagcccatttctagttagggcataaggtgttttcttttaaaagaactaggtgattctccgcgctttgctgcgggaatactaagcaatattccgacaatcatgctaggtgtaaaaaaaaatgaaatatgatggtttattagtacttatcataaaacaaacaaatgataaatgtgatttaatttaatgtagaacatattgataattatatgttaaatattacaaaaatgatagatataattgttaaaatattgtgaaaatgatgtaaggggtgatgattagatatacttgcatgttgatttgtataattaaataaattatagattatagatgatgttgtatgcttgcatggggttaactatataattattgctagtgggtaatgatgtggcatggttacatgttgagttttaggagttagtgagcatcaactttatagtaagatatgattattattacctaaacaacatatctcgatcctaaaatatagttatctgtagttgttactctatattttgggacatagaaaataatagcaaagcatttataaacttatttggtatggcatattaatatagtaggatagcaaattgaactagccctaaattagctttgccaatatttaacatcaaactacaaaaaatcattttatcgaatttttgggttgccaatattttgagaagtttataatattggctaaaagccaaacagaaccttagttaatcggaactatatttttcgtgatctaagatagttgttgtagaaatgaatgttgctacacaaatcaagacgctctaggtatatgtgatacaaataacataaaaatatgtcgtcattcgtgctcaggatggttctgttcaaaatatgctggaatttgtcagttccatgcccttcctattagagccgcaagaatgattttttaaaaggacaagaaaagaaccggtttatactgttttttattctgcatttcagttctgggggtgtcgtgcgtttttgtttgctgcaaaaacagccatcctgcataggaaaccagagtttcaaatgcccacagattctaccgagtatagttaattagtggtaaattaattctaactaggacgcaggccctattatcaacgttggcgtcttagcgacaggaggacaaacacggttataggtatgtataccttgtctcaagtaagtccaaagatgtttgttaattgttatgaaatgtaggcatggttgcgatgagattacgagacccatagt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Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062042.1 RefSeq:Os05g0405000]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

@@ Line 14: / Line 14: @@
 * Cross-sectioning revealed that the interior of the endosperm was floury-white while the outer portion was normal (Figure 1d). This suggests that starch accumulation was abnormal in the early stages of ripening, but recovered later on in development. The scanning electron microscopic analysis showed that the white endosperm comprised round and loosely packed, compound starch granules (Figure 1f).
 ===Expression ===
@@ Line 21: / Line 28: @@
 You can also add sub-section(s) at will.
 ==Labs working on this gene==

@@ Line 16: / Line 16: @@
 ===Expression ===
-[[File:Os05g0405000-2.png|right|thumb|400px|'''Figure 3. Expression analysis by RT-PCR and GUS assay.''' '' <ref name="ref1" />.'']]
+[[File:Os05g0405000-2.png|right|thumb|250px|'''Figure 3. Expression analysis by RT-PCR and GUS assay.''' '' <ref name="ref1" />.'']]
 * Expression analyses demonstrated that the cytosolic mRNA of OsPPDKB was induced in the reproductive organs after pollination, and greatly increased until about 10 days after fertilization.
 * This mRNA was localized mainly in the endosperm, aleurone, and scutellum of the developing kernel.
 You can also add sub-section(s) at will.
 ==Labs working on this gene==
 *Laboratory of Plant Functional Genomics, Division of Molecular and Life Sciences, Pohang University of Science and Technology, Pohang 790-784, Korea, and

@@ Line 10: / Line 10: @@
 ===Mutation===
-[[File:Os05g0405000-1.png|right|thumb|2500px|'''Figure 1. Phenotypes of flo4 kernels.''' '' <ref name="ref1" />.'']]
+[[File:Os05g0405000-1.png|right|thumb|250px|'''Figure 1. Phenotypes of flo4 kernels.''' '' <ref name="ref1" />.'']]
 * The researchers conducted a screening for GUS activity to identify knockout mutations in the genes expressed in mature seeds. Among the several hundred GUS-positive lines that were identified, we found one in which the white-core endosperm mutant phenotype co-segregated. This floury mutation was recessively segregated (Figure 1a), and was named floury-4 (flo4).

@@ Line 10: / Line 10: @@
 ===Mutation===
-[[File:Os05g0405000-1.png|right|thumb|400px|'''Figure 1. Phenotypes of flo4 kernels.''' '' <ref name="ref1" />.'']]
+[[File:Os05g0405000-1.png|right|thumb|2500px|'''Figure 1. Phenotypes of flo4 kernels.''' '' <ref name="ref1" />.'']]
 * The researchers conducted a screening for GUS activity to identify knockout mutations in the genes expressed in mature seeds. Among the several hundred GUS-positive lines that were identified, we found one in which the white-core endosperm mutant phenotype co-segregated. This floury mutation was recessively segregated (Figure 1a), and was named floury-4 (flo4).
 * Cross-sectioning revealed that the interior of the endosperm was floury-white while the outer portion was normal (Figure 1d). This suggests that starch accumulation was abnormal in the early stages of ripening, but recovered later on in development. The scanning electron microscopic analysis showed that the white endosperm comprised round and loosely packed, compound starch granules (Figure 1f).
 ===Expression ===
 [[File:Os05g0405000-2.png|right|thumb|400px|'''Figure 3. Expression analysis by RT-PCR and GUS assay.''' '' <ref name="ref1" />.'']]

@@ Line 1: / Line 1: @@
-The rice gene  was reported as '''''''''' in 20<ref name="ref1" /> by researchers from China and Japan.
+The rice gene Os05g0405000 was reported as ''''' flo4''''' in 2005<ref name="ref1" /> by researchers from Korea and Japan.
 ==Annotated Information==
 ===Gene Symbol===
-*''''' <=>
+*'''''Os05g0405000 <=> flo4, flo4-2, flo4-3, ppdk, OsPPDK, PPDK1, CPDK1, PPDKB, OsPPDKB, cyOsPPDKB, OsPBDK, PBDK, osppdkb
 ===Function===
-[[File:.png|right|thumb|400px|'''''' '' <ref name="ref1" />.'']]
+* '''''OsPPDKB''''' gene encodes pyruvate orthophosphate dikinase (PPDK).
 ===Mutation===
-[[File:.png|right|thumb|400px|'''''' '' <ref name="ref1" />.'']]
+[[File:Os05g0405000-1.png|right|thumb|400px|'''Figure 1. Phenotypes of flo4 kernels.''' '' <ref name="ref1" />.'']]
 ===Expression ===
-[[File:.png|right|thumb|400px|'''''' '' <ref name="ref1" />.'']]
+[[File:Os05g0405000-2.png|right|thumb|400px|'''Figure 3. Expression analysis by RT-PCR and GUS assay.''' '' <ref name="ref1" />.'']]
+* Expression analyses demonstrated that the cytosolic mRNA of OsPPDKB was induced in the reproductive organs after pollination, and greatly increased until about 10 days after fertilization.
+* This mRNA was localized mainly in the endosperm, aleurone, and scutellum of the developing kernel.
 You can also add sub-section(s) at will.
 ==Labs working on this gene==
+*Laboratory of Plant Functional Genomics, Division of Molecular and Life Sciences, Pohang University of Science and Technology, Pohang 790-784, Korea, and
 ==References==
 <references>
 * <ref name="ref1">
+Dai X, You C, Wang L, Chen G, Zhang Q, Wu C. Molecular characterization,
 </ref>
 </references>

← Older revision		Revision as of 20:10, 22 July 2012
Line 1:		Line 1:
		+	Please input one-sentence summary here.
		+
		+	==Annotated Information==
		+	===Function===
		+	Please input function information here.
		+
		+	===Expression===
		+	Please input expression information here.
		+
		+	===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==
		+	Please input cited references here.
		+
		+	==Structured Information==
	{{JaponicaGene\|		{{JaponicaGene\|
	GeneName = Os05g0405000\|		GeneName = Os05g0405000\|