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| − | Please input one-sentence summary here.
| + | The rice '''''Os05g0156900''''' was reported as '''''chalk5''''' in 2014 <ref name="ref1" /> by researchers from China. |
| | | | |
| | ==Annotated Information== | | ==Annotated Information== |
| | + | [[File:84-Os05g0156900.png|right|thumb|427px|'''Figure 4.''' ''Subcellular localization and analysis of the Chalk5 protein.<ref name="ref1" />.'']] |
| | + | ===Gene Symbol=== |
| | + | *'''''Os05g0156900''''' '''''<=>'''''chalk5,OsChalk5''''' |
| | ===Function=== | | ===Function=== |
| − | Please input function information here.
| + | * '''''Chalk5''''' encodes a vacuolar H + -translocating pyrophosphatase (V-PPase) with inorganic pyrophosphate (PP i ) hydrolysis and H+ -translocation activity. |
| − | | + | * 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. |
| | ===Expression=== | | ===Expression=== |
| − | Please input expression information here.
| + | * 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. |
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| − | ===Evolution=== | + | ===Phenotypic analysis=== |
| − | Please input evolution information here.
| + | * In subcellular localization analysis, both proteins encoded by the two alleles from the parents colocalized with a vacuole-specific marker (VIT1 protein), indicating vacuolar localization of the '''''Chalk5''''' protein. |
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| | You can also add sub-section(s) at will. | | You can also add sub-section(s) at will. |
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| | ==Labs working on this gene== | | ==Labs working on this gene== |
| − | Please input related labs here.
| + | * National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China. |
| | + | * Shanghai Agrobiological Gene Center, Shanghai, China. |
| | | | |
| | ==References== | | ==References== |
| − | Please input cited references here.
| + | <references> |
| | + | * <ref name="ref1"> |
| | + | Li Y, Fan C, Xing Y, Yun P, Luo L, Yan B, Peng B, Xie W, Wang G, Li X, Xiao J, |
| | + | Xu C, He Y. Chalk5 encodes a vacuolar H(+)-translocating pyrophosphatase |
| | + | influencing grain chalkiness in rice. Nat Genet. 2014 Apr;46(4):398-404. doi: |
| | + | 10.1038/ng.2923. Epub 2014 Mar 16. Erratum in: Nat Genet. 2014 Jun;46(6):657. |
| | + | PubMed PMID: 24633159. |
| | + | |
| | + | </ref> |
| | + | </references> |
| | | | |
| | ==Structured Information== | | ==Structured Information== |
| − | {{JaponicaGene|
| + | [[Category:Genes]][[Category:Oryza Sativa Japonica Group]][[Category:Japonica Chromosome 5]] |
| − | GeneName = Os05g0156900|
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| − | Description = Similar to Inorganic pyrophosphatase (EC 3.6.1.1) (Fragment)|
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| − | Version = NM_001061236.1 GI:115462202 GeneID:4337864|
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| − | Length = 4438 bp|
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| − | Definition = Oryza sativa Japonica Group Os05g0156900, complete gene.|
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| − | Source = Oryza sativa Japonica Group
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| − | | |
| − | ORGANISM Oryza sativa Japonica Group
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| − | Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
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| − | Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
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| − | clade; Ehrhartoideae; Oryzeae; Oryza.
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| − | |
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| − | Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
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| − | AP = Chromosome 5:3313425..3317862|
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| − | CDS = 3313678..3314686,3314784..3314870,3315271..3315650,3316931..3317767|
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| − | GCID = <gbrowseImage1>
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| − | name=NC_008398:3313425..3317862
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| − | source=RiceChromosome05
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| − | preset=GeneLocation
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| − | </gbrowseImage1>|
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| − | GSID = <gbrowseImage2>
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| − | name=NC_008398:3313425..3317862
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| − | source=RiceChromosome05
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| − | preset=GeneLocation
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| − | </gbrowseImage2>|
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| − | CDNA = <cdnaseq>atggcgctcatcggcacggtggcggccgaggtgctcatcccgctcgcggcggtgatcggcatcctcttcgccgtgctccagtggtacatggtgtccagggtggccgtcccgccgcacgacggcgtcggcggcgccgggaaggtggagagggagagcgacggcggcgacggcgacggcgacggcgtcgacgacgaggaggacggcgtggactaccggggcgtggaggcgaggtgcgcggagatccagcacgccatctccgtgggcgcgacgtcgttcctgatgacggagtacaagtacctgggcgcgttcatggcggcgttcgcggcggtcatcttcgtctcgctgggctccgtggggcggttctccacgtcgacggagccgtgcccgtacgacgcggcgaggcggtgccgcccggcgctggcgaacgcggcgttcaccgcggcggcgttcctcctcggcgccaccacctcggtggtctccggctacctcgggatgcgggtggcgacgttcgcgaacgcgaggacggcgctggaggctcgccgcgggatcgggcgggcgttcgcggtggcgttcaggtcgggcgccgccatggggttcctgctggcgtcgagcgcgctgctggtgctgttcgccgccgtgaacgcgttcgggctctactacggcgacgactggggcgggctgtacgaggcgatcaccgggtacgggctcggggggtcgtccatggcgctgttcggccgcgtcggcggcgggatctacaccaaggcggccgacgtcggcgccgacctcgtcggcaaggtggagcgcaacatccccgaggatgacccccgcaaccccgcggtgatcgccgacaacgtgggcgacaacgtgggcgacatcgccgggatggggtccgacctgttcgggtcgtacgcggagtcgtcgtgcgcggcgctgttcgtggcgtccatctcctccttcggcgccgaccacgacttcgcggcgatgatgtacccgctgctggtgagcgccgccggcatcgtggcctgcgccgccaccacgctcgtcgccaccgacgccggcgagctcggcgccgccgacgaggtcgcgcccgcgctcaagcgccagatcctcatctccaccgtgctcatgaccgccgccgtcgccgccgtcaccttcctctccctcccccgctccttcaccctcttcgacttcggcgaacgcaagctcgtcaaaaattggcacctgttcatctgcgtctcagctggtctgtgggcgggattggtgataggctacgtcaccgagtacttcacgagcaatgcttacgggccggtgcagacggtggcgcagtcgtgccggacgggggcggcgacgaacgtgatcttcggcctcgccgtggggtacaagtcggtgatcgtgccgatcttcgccatcgccggcgccatctacgccagcttccggctcgccgccatgtacggcatcgcgctggctgcgctggggatgctgagcaccatcgccacggggctcaccatcgacgcctatggccccatcagcgacaacgccggcggcatcgcggagatggccggcatgccgcggcgcgtgcgcgagcgcacggacgcgctcgacgccgccgggaacacgacggcggcgatcgggaaggggttcgcgatcgggtcggcggcgctggtgtcgctggcgctgttcggcgcgtacgtgagccgggcggggatccggacggtgaacgtggtgagccccagggtgttcgtcgggctcctcgccggcgccatgctcccctactggttctcggcgatgacgatgcggagcgtggggagcgcggcgctgcggatggtggaggaggtgcggcgccagttcgacgagatcccggggctcgccgaggggctcgccgcgccggactacgccacctgcgtgaggatctccaccgacgcgtcgctgcgggagatggtggcgccgggggcgctggtgatggcgagcccgctcgtcgccgggacgctgttcggggtggaggcgctggcggggctgctcgccggcgcgctggtgtccggggtgcaggtggcgatctcggcgtcgaacagcggcggcgcgtgggacaacgccaagaagtacatcgaggccggggcgacggaggaggcgaggtcgctggggcccaagggctccgaggcgcacaaggcggcggtgatcggggacaccatcggcgacccgctcaaggacacctcggggccatcgctcaacatcctcgtcaagctcatggccgtcgaggcgctcgtcttcgcccccttcttcgccgcgcatggcggcatcgtcttcaaccacctctga</cdnaseq>|
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| − | AA = <aaseq>MALIGTVAAEVLIPLAAVIGILFAVLQWYMVSRVAVPPHDGVGG AGKVERESDGGDGDGDGVDDEEDGVDYRGVEARCAEIQHAISVGATSFLMTEYKYLGA FMAAFAAVIFVSLGSVGRFSTSTEPCPYDAARRCRPALANAAFTAAAFLLGATTSVVS GYLGMRVATFANARTALEARRGIGRAFAVAFRSGAAMGFLLASSALLVLFAAVNAFGL YYGDDWGGLYEAITGYGLGGSSMALFGRVGGGIYTKAADVGADLVGKVERNIPEDDPR NPAVIADNVGDNVGDIAGMGSDLFGSYAESSCAALFVASISSFGADHDFAAMMYPLLV SAAGIVACAATTLVATDAGELGAADEVAPALKRQILISTVLMTAAVAAVTFLSLPRSF TLFDFGERKLVKNWHLFICVSAGLWAGLVIGYVTEYFTSNAYGPVQTVAQSCRTGAAT NVIFGLAVGYKSVIVPIFAIAGAIYASFRLAAMYGIALAALGMLSTIATGLTIDAYGP ISDNAGGIAEMAGMPRRVRERTDALDAAGNTTAAIGKGFAIGSAALVSLALFGAYVSR AGIRTVNVVSPRVFVGLLAGAMLPYWFSAMTMRSVGSAALRMVEEVRRQFDEIPGLAE GLAAPDYATCVRISTDASLREMVAPGALVMASPLVAGTLFGVEALAGLLAGALVSGVQ VAISASNSGGAWDNAKKYIEAGATEEARSLGPKGSEAHKAAVIGDTIGDPLKDTSGPS LNILVKLMAVEALVFAPFFAAHGGIVFNHL</aaseq>|
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| − | DNA = <dnaseqindica>3177..4185#2993..3079#2213..2592#96..932#actccacatctcttctccatcaagaatcaatcactcgctcgtcttctcctccattggagctctcgatcgagcttagctttgcgcttcgttcatccatggcgctcatcggcacggtggcggccgaggtgctcatcccgctcgcggcggtgatcggcatcctcttcgccgtgctccagtggtacatggtgtccagggtggccgtcccgccgcacgacggcgtcggcggcgccgggaaggtggagagggagagcgacggcggcgacggcgacggcgacggcgtcgacgacgaggaggacggcgtggactaccggggcgtggaggcgaggtgcgcggagatccagcacgccatctccgtgggcgcgacgtcgttcctgatgacggagtacaagtacctgggcgcgttcatggcggcgttcgcggcggtcatcttcgtctcgctgggctccgtggggcggttctccacgtcgacggagccgtgcccgtacgacgcggcgaggcggtgccgcccggcgctggcgaacgcggcgttcaccgcggcggcgttcctcctcggcgccaccacctcggtggtctccggctacctcgggatgcgggtggcgacgttcgcgaacgcgaggacggcgctggaggctcgccgcgggatcgggcgggcgttcgcggtggcgttcaggtcgggcgccgccatggggttcctgctggcgtcgagcgcgctgctggtgctgttcgccgccgtgaacgcgttcgggctctactacggcgacgactggggcgggctgtacgaggcgatcaccgggtacgggctcggggggtcgtccatggcgctgttcggccgcgtcggcggcgggatctacaccaaggcggccgacgtcggcgccgacctcgtcggcaaggtggagcgcaacatccccgaggatgacccccgcaaccccgcggtaagccacgccacgtcactctcctcgtcctcactctgttaaagattaagttaacacacataaaaattaagttaacgcacatgaaacgagaaagctattagcatataattaacttttctttaagataaaggatttaaataaaacccggcttctacatcccgaagaatgtacacagccaaccaaatccatacaaaaacactaaggctagtaaacatgattaactaagttttaattattgctaactgataaattgatatatctgatagtttaaagcaacttctgtataaaaagtttctgtaacgtatcgtttagttgtttaaaaagcacgctaatacgaacagaggtaatatctgaattttaatcagaaaagaacatgaccgaaccaattcgatctcatattttaaaacaactcaaagctgcttgcatgttgcatgcgagctcggttcgatctgagccactgcactaatctgaaagcaagtccagttggcctttttttgttgccttccttaaacattactaggaagcatgaaactcacgtgttcagtgttctctgctagctggcacaggcgtaacgcatgatttttaccggatttattcatagaaatataggagagagattgaaaatttattgtcttgtttggagaaaaggaattatttaaaaagtctcgctaggaaatatttaaattgtggacaaatttaaactgaatttgacttagaaatttaagtgaattcaattcaaaccaactttctttttaaaaagatcgattgaaacaaatctattttggcagttgatttgtgtatgcatccactttggattgttcttttgactgaatagctcaatatctgaatatttgtaatgattatttgaggttacaaacgaatgaactaaatattgttttcttttcgtttcgtattataagatattttgggtataatttgaatagatttatgcatgaattcagatacgtacaatatgtatatgtgcgcaaatttatatagatattagtgaatttagatgatgtatgaagaggccaaaacgttgtataacatataacggagaaaatatagagttgagatcgattttggtttgaaatagttttctcgaaagaaattatatatacaagaagattttataaaatgcttttatataattgtatcgtttaaaaaaccgtttaaaagtttgggaagcttacaaattcacccccatcgttcccttccttcaaagagaagtgatacatcatatatggttttgtacgtgcgtgtggatatgatgtgcgcaggtgatcgccgacaacgtgggcgacaacgtgggcgacatcgccgggatggggtccgacctgttcgggtcgtacgcggagtcgtcgtgcgcggcgctgttcgtggcgtccatctcctccttcggcgccgaccacgacttcgcggcgatgatgtacccgctgctggtgagcgccgccggcatcgtggcctgcgccgccaccacgctcgtcgccaccgacgccggcgagctcggcgccgccgacgaggtcgcgcccgcgctcaagcgccagatcctcatctccaccgtgctcatgaccgccgccgtcgccgccgtcaccttcctctccctcccccgctccttcaccctcttcgacttcggcgaacgcaagctcgtcaaaaattggtaaaagaaaaaaaaaccttacatagtgtgtaatttatttttttttggtttttttaaaaaattataattacacggcagacatacgcacacaaacaagaccacactcacatccctgtatacaatacattttttttaaaagttttacaattacacgggagacacacgtgcacagataataccacactcacatccctgtctatgtgcattcaacaacacattcttgatttcggagaaatcatgttaaaaacctagttacagtgcgtaatatttataagcaccaagatttgaatcttgttgggtggagccatgcacctatgactctagcagttgtacttgcaccaaatttgattaaattatggaataataatagttttgtctgaatttttgttgaataattcaggcacctgttcatctgcgtctcagctggtctgtgggcgggattggtgataggctacgtcaccgagtacttcacgagcaatgcttacgggtgaaaacgaattctacccacccaaattcgcgatgattctacattttgtaaaatttcaaattttgatgaaatttgcgttcaaatttcaaattgataggccggtgcagacggtggcgcagtcgtgccggacgggggcggcgacgaacgtgatcttcggcctcgccgtggggtacaagtcggtgatcgtgccgatcttcgccatcgccggcgccatctacgccagcttccggctcgccgccatgtacggcatcgcgctggctgcgctggggatgctgagcaccatcgccacggggctcaccatcgacgcctatggccccatcagcgacaacgccggcggcatcgcggagatggccggcatgccgcggcgcgtgcgcgagcgcacggacgcgctcgacgccgccgggaacacgacggcggcgatcgggaaggggttcgcgatcgggtcggcggcgctggtgtcgctggcgctgttcggcgcgtacgtgagccgggcggggatccggacggtgaacgtggtgagccccagggtgttcgtcgggctcctcgccggcgccatgctcccctactggttctcggcgatgacgatgcggagcgtggggagcgcggcgctgcggatggtggaggaggtgcggcgccagttcgacgagatcccggggctcgccgaggggctcgccgcgccggactacgccacctgcgtgaggatctccaccgacgcgtcgctgcgggagatggtggcgccgggggcgctggtgatggcgagcccgctcgtcgccgggacgctgttcggggtggaggcgctggcggggctgctcgccggcgcgctggtgtccggggtgcaggtggcgatctcggcgtcgaacagcggcggcgcgtgggacaacgccaagaagtacatcgaggccggggcgacggaggaggcgaggtcgctggggcccaagggctccgaggcgcacaaggcggcggtgatcggggacaccatcggcgacccgctcaaggacacctcggggccatcgctcaacatcctcgtcaagctcatggccgtcgaggcgctcgtcttcgcccccttcttcgccgcgcatggcggcatcgtcttcaaccacctctgatgaagctgagctccattgctaataaattaagctgcatgcatgctctcgccatgatcgatcagctgcacctgcatgcacgcatggataaacaagaagaagacgatgagcattagggttccttaaccagttgaaaccgataagagtaataattgtagctcgggataatgcagtgtcagatgtaatccaaagtgtcttgttgcttgggatatgtaatgcggtttgagacttaggatgtaatccaatgttgttttag</dnaseqindica>|
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| − | Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001061236.1 RefSeq:Os05g0156900]|
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| − | }}
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| − | [[Category:Genes]] | |
| − | [[Category:Japonica mRNA]]
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| − | [[Category:Oryza Sativa Japonica Group]] | |
| − | [[Category:Japonica Genes]] | |
| − | [[Category:Japonica Chromosome 5]]
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| − | [[Category:Chromosome 5]]
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