Chalk5
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Contents
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. The elevated activity of Chalk5 increases the proton concentration and promotes water loss, which could disturb pH homeostasis in the endomembrane trafficking system of developing endosperms, resulting in a great increase in small vesicle-like structures coupled with an abnormal decrease in protein body number and size, causing the formation of air spaces among starch granules and protein bodies and thus aberrant shape and spatial arrangements of these storage substances, leading to chalky grain.
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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
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Labs working on this gene
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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
| Gene Name |
chalk5 |
|---|---|
| Description |
Putative uncharacterized protein |
| Definition |
Oryza sativa Indica Group BGIOSGA000079, complete gene. |
| LocusTag |
chalk5 |
| Ensembl Transcript ID |
BGIOSGA000079-TA |
| Ensembl Protein ID |
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 | |
| Location |
Chromosome 5:46289509..46292130 |
| Sequence Coding Region |
46291834..46292130,46291618..46291722,46291453..46291526,46291309..46291367,46290712..46290749 |
| Genome Context |
</Ng.2923-F1.jpg> name=IndicaChromosome01:46289509..46292130 source=RiceIndica01 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=IndicaChromosome01:46289509..46292130 source=RiceIndica01 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>ATGGCGGCACACTCCCACGTCATCCCCTTCCTCTCCCCGGCGGCGACGTCCGCGCGCTGCTCCCCCTACGGCCACCGCCGCCGCGGCCGCGCGGGGCTCCTGCGGTGCGCGGCGGCGGCGGGGCAGGCGGGGTTCTTCACCCGCCTGGGACGCCTCATCCAGGAGAAGGCCAAGAGCGACGTCGAGAAGCTCTTCTCCGGCTTCTCCAAGACCCGCGAGAGCCTCTCCGTCGTCGACGAGCTCCTCACCTACTGGAACCTCGCCGACACCGACCGCGTCCTCGACGAGCTCGAGGAGGCTCTGCTGGTGTCGGATTTTGGCCCCAAGATTTCGTTCCGGATCGTGGACACTCTACGCGAGGAAATCCGCGATGGCAAGCTCAAGTCTGGGGCTGAGATAAAGGAAGCGCTGAAAAGGTGTATTCTTGAACTGCTGACGAGCAAAGGCGGCAATCCGGAGCTGCAGCTCGGTTTCAGAAAGCCGGCAGTTATCATGATTGTGGGAGTGAATGGAGGTGGAAAGACTACCTCATTAGGAAAACTTGCTTACAGATTCAAGAATGAAGGAGTGAAGGTATTGATGGCAGCAGGTGATACCTTCAGAGCAGCAGCTCGTGACCAGCTAGAAGTTTGGGCAGAGAGAACAGGTTCAGAGATTGTTATCGATAATGATAAGAAAGCAAAACCTGCATCAGTTCTCTCGCAGGCAGTGAAGCGCGGGAAGCGTGAAGGATTTGATCTTGTTCTTTGCGACACGTCAGGACGACTTCATACAAATTATGGTCTGATGGAAGAATTGGTTTCCTGCAAGAAAGTCATAGCTAAAGCCCTTCCGGGTGCTCCTAATGAGATCTTGCTGGTTCTGGATGGCACGACTGGCTTGAATATGCTACAACAAGCGAGGGAGTTCAATGATGTTGTTGGAGTCACAGGATTCGTCCTAACAAAGCTTGATGGAACTGCTCGTGGTGGTTGTGTGGTTAGCGTTGTAGATGAACTTGGAATTCCAGTAAAGTTTATTGGTGTTGGTGAAGGGATGGAGGATCTTCAGCCTTTTGATGCTGAGGCATTTGTTGAAGCCATTTTTCCTTGA</cdnaseq> |
| Protein Sequence |
<aaseq>MAAHSHVIPFLSPAATSARCSPYGHRRRGRAGLLRCAAAAGQAGFFTRLGRLIQEKAKSDVEKLFSGFSKTRESLSVVDELLTYWNLADTDRVLDELEEALLVSDFGPKISFRIVDTLREEIRDGKLKSGAEIKEALKRCILELLTSKGGNPELQLGFRKPAVIMIVGVNGGGKTTSLGKLAYRFKNEGVKVLMAAGDTFRAAARDQLEVWAERTGSEIVIDNDKKAKPASVLSQAVKRGKREGFDLVLCDTSGRLHTNYGLMEELVSCKKVIAKALPGAPNEILLVLDGTTGLNMLQQAREFNDVVGVTGFVLTKLDGTARGGCVVSVVDELGIPVKFIGVGEGMEDLQPFDAEAFVEAIFP</aaseq> |
| Gene Sequence |
<dnaseqindica>1..297#409..513#605..678#764..822#1382..1419#1578..1698#1793..1861#1956..2038#2202..2270#2360..2422#2509..2622#ATGGCGGCACACTCCCACGTCATCCCCTTCCTCTCCCCGGCGGCGACGTCCGCGCGCTGCTCCCCCTACGGCCACCGCCGCCGCGGCCGCGCGGGGCTCCTGCGGTGCGCGGCGGCGGCGGGGCAGGCGGGGTTCTTCACCCGCCTGGGACGCCTCATCCAGGAGAAGGCCAAGAGCGACGTCGAGAAGCTCTTCTCCGGCTTCTCCAAGACCCGCGAGAGCCTCTCCGTCGTCGACGAGCTCCTCACCTACTGGAACCTCGCCGACACCGACCGCGTCCTCGACGAGCTCGAGGAGGCGCGTCCCCTGCTCCACTGCTCTGCATGCTGTTCTCTCCTTCTTCACTGTTCGGCGCTGCTTCTGTCTTCGTTTTTTTTGAATGTTTCCTGCTTGGTCTCGTGCACGCAGGCTCTGCTGGTGTCGGATTTTGGCCCCAAGATTTCGTTCCGGATCGTGGACACTCTACGCGAGGAAATCCGCGATGGCAAGCTCAAGTCTGGGGCTGAGATAAAGGTCATTTCAGTTTCCTCTTAGTGTACATTGACATCGGCATTGTGATTGGTCTGATGATTCATTTTGTCATCTGTGGTGGTTGATTGTGCAGGAAGCGCTGAAAAGGTGTATTCTTGAACTGCTGACGAGCAAAGGCGGCAATCCGGAGCTGCAGCTCGGTTTCAGGTTCTGCTTTCTCCTGAATTCCTGCTCAGTGCCATTTGTTGCTTGCTGTTTGTAATTTGAGCAATGTTGTTCATCGTTATGGCAGAAAGCCGGCAGTTATCATGATTGTGGGAGTGAATGGAGGTGGAAAGACTACCTCATTAGGTACTCCTCTTGCATGCTTGGCTTTGTTAAGCTTAGATGTTTTTGTTCCATTCTGATAGATGGTCAATAAACGGTAACACACTCTCCTATGGTCCTACCCTAGTACCCTACTATATGGACAATTGACATTATGATGATGTTCTAAAGGCACAACACATGGTTATATAGGCACGCAAGTGCATTTGTGAAGGAAAAGATATTTGGTTATAAAAGCACAATACTGTAATTAGGCCATCACAAGATTATCTCTTATACACCAATGTACTAGTTACTCGAAGTGAATTTATCACGCCTATGTAAGGTATTTTCAGCTCAATGCAAAACTACTTGCATATTAAGCTTGGATTGTGGCATAGCATTGGATTAAGCTTCTGCAGGTTATCTTGTCGCTTTAAAGCTAATATGGTACCTAGATAGTAAGGAGCTCCTCAATATGCAGTTCTGGTTCGGGCATTTTCTACCATCTGCATCTGGCATCACTATTTAGTTTGGAACGTTTTATACAGCATGATGCTTTGAAGTGGAAGATTGATCTTACTCCTTTTTTATGTATTTGTAGGAAAACTTGCTTACAGATTCAAGAATGAAGGAGTGAAGGTGAGGCTATTTTCTAGACATACCCTGGTTTATAGGCTAGATGCATGGGAATTAAATTCAGCTATGTACATATTGCCTCACCACATTCTCTGAACATGTAATATTGTACAATAGATCAAAATAATGAGTTCATGTTCATGCTTTCAACAATAATATAGGTATTGATGGCAGCAGGTGATACCTTCAGAGCAGCAGCTCGTGACCAGCTAGAAGTTTGGGCAGAGAGAACAGGTTCAGAGATTGTTATCGATAATGATAAGAAAGCAAAACCTGCATCAGGTATGATTTTTTGATCTGCCAAGCATTGTGATCACACTCTGTTCTCATAAGGAGGTTAGCTTCTATGTTTCATCTAATTTGACTTGCTTGGTAGTTCTCTCGCAGGCAGTGAAGCGCGGGAAGCGTGAAGGATTTGATCTTGTTCTTTGCGACACGTCAGGACGTATGATTATTTTAGTGACTGAGAGCAGAATATGCATATGTTTGGTGATTTGCTGATTGGTTGAAATGACTTTGTTTCAGCACTTATTTTTCAGGACTTCATACAAATTATGGTCTGATGGAAGAATTGGTTTCCTGCAAGAAAGTCATAGCTAAAGCCCTTCCGGGTGCTCCTAATGTATGCTGTGTTTACATGCAAAGGACTTGATTTTGTGTTGATTGGATCATTTTGGCATGTGCAGTACTTTTGAGGGCAAGCTTAGAGAAGCACGGTTATGATTCTAATACTTCATAGCGCTCTCATTGTTATTAACTACTAGCATATATTCCTTGCTTAACAGGAGATCTTGCTGGTTCTGGATGGCACGACTGGCTTGAATATGCTACAACAAGCGAGGGAGTTCAATGATGTAATCACCATTTCCTGGTTATTTTGGTACTCCTGATTTTTCTTTTTTTTTTCATCAAGATATAACGAACTCTGTTGGCTTAATGCCAGGTTGTTGGAGTCACAGGATTCGTCCTAACAAAGCTTGATGGAACTGCTCGTGGTGGTTGTGTGGTATACACATATTCCTTGCCATATGCAGTTTATAAACAACAACATTTTAGTGGTTCACCTGAATTTTGTTGTTTGATCTATTGCAGGTTAGCGTTGTAGATGAACTTGGAATTCCAGTAAAGTTTATTGGTGTTGGTGAAGGGATGGAGGATCTTCAGCCTTTTGATGCTGAGGCATTTGTTGAAGCCATTTTTCCTTGA</dnaseqindica> |
| External Link(s) |
