Difference between revisions of "Os07g0558500"
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===Knowledge Extension=== | ===Knowledge Extension=== | ||
*Ionizing radiation often induces chromosomal rearrangements such as inversions and translocations, which cause gene disruptions or, in some cases, gene fusions. In most cases, these mutations are loss-of-function and recessive; however, both loss-of-function and gain-of-function mutations are possible for gene fusions. Theoretically, these mutations may involve two gene mutations associated with two chromosomal breakpoints. | *Ionizing radiation often induces chromosomal rearrangements such as inversions and translocations, which cause gene disruptions or, in some cases, gene fusions. In most cases, these mutations are loss-of-function and recessive; however, both loss-of-function and gain-of-function mutations are possible for gene fusions. Theoretically, these mutations may involve two gene mutations associated with two chromosomal breakpoints. | ||
| + | *NYC4 encodes an ortholog of THYLAKOID FORMATION1 (THF1) in Arabidopsis thaliana. THF1 is a multi-function protein that is involved in acclimation to high light, sugar sensing and disease resistance. | ||
==Labs working on this gene== | ==Labs working on this gene== | ||
Revision as of 09:28, 9 June 2014
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Contents
Annotated Information
Function
- NYC4 encodes the ortholog of Arabidopsis THF1. nyc4 retained chlorophyll during senescence, although changes in other senescence parameters indicated that senescence proceeded, suggesting that nyc4 is a non-functional stay-green mutant.
- In nyc4, the Fv/Fm value, which reflects PSII activity, remains at a high level during senescence. This is a very different characteristic from those observed in the non-functional stay-green mutants sgr and nyc3
Mutation
- The nyc4-1 mutation was induced by a translocation-related chromosomal rearrangement
- The nyc4-1 was obtained from a rice (Oryza sativa L. cv. Nipponbare) M2 population derived from seeds irradiated with carbon ion beams (200 MeV). For dark-induced senescence, detached leaves were incubated in water at 28ºC.
Expression
NYC4 is expressed in various tissues, but is expressed more strongly in green tissues such as the leaf, stem, lemma and palea . Expression of NYC4 was down-regulated within 24 h of dark incubation, and then gradually increased during the extended dark incubation, and finally reached the level similar to that observed before dark incubation. This expression pattern is consistent with the function of NYC4: acclimation to high light and promotion of chlorophyll degradation in senescence.
Knowledge Extension
- Ionizing radiation often induces chromosomal rearrangements such as inversions and translocations, which cause gene disruptions or, in some cases, gene fusions. In most cases, these mutations are loss-of-function and recessive; however, both loss-of-function and gain-of-function mutations are possible for gene fusions. Theoretically, these mutations may involve two gene mutations associated with two chromosomal breakpoints.
- NYC4 encodes an ortholog of THYLAKOID FORMATION1 (THF1) in Arabidopsis thaliana. THF1 is a multi-function protein that is involved in acclimation to high light, sugar sensing and disease resistance.
Labs working on this gene
- Graduate School of Science, Hiroshima University, Higashi-Hiroshima 739–8526, Japan
- Genome Resource Unit, National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan
- Institute of Plant Science and Resources, Okayama University, Kurashiki 710-0046, Japan
- Institute of Radiation Breeding, National Institute of Agrobiological Sciences, Hitachi-Ohmiya 219-2293, Japan
- Faculty of Life and Environmental Sciences, Prefectural University of Hiroshima, Shobara 727-0023, Japan
- Institute of Low Temperature Science, Hokkaido University, Sapporo 060-0819, Japan
References
1 Yamatani, H. et al. NYC4, the rice ortholog of Arabidopsis THF1, is involved in the degradation of chlorophyll - protein complexes during leaf senescence. The Plant journal : for cell and molecular biology 74, 652-662, doi:10.1111/tpj.12154 (2013).
Structured Information
| Gene Name |
Os07g0558500 |
|---|---|
| Description |
Inositol phosphatase-like protein |
| Version |
NM_001066511.1 GI:115472754 GeneID:4343584 |
| Length |
3989 bp |
| Definition |
Oryza sativa Japonica Group Os07g0558500, 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 | |
| Location |
Chromosome 7:22979321..22983309 |
| Sequence Coding Region |
22979511..22979604,22979898..22980013,22981139..22981355,22981799..22982069,22983047..22983212 |
| Expression | |
| Genome Context |
<gbrowseImage1> name=NC_008400:22979321..22983309 source=RiceChromosome07 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=NC_008400:22979321..22983309 source=RiceChromosome07 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>atggcggccatatcttcgcttcccttcgcggcactgcgccgggccgccgactgcaggccgtcgacggcggcggcggcggcgggggcgggggcgggggccgtcgtgctcagcgtgaggccccggcgggggtcgcgctcggtggtgcgctgcgtcgccacggcgggcgatgttccacccactgtcgcagaaacaaagatgaattttctcaagtcatacaagcgtcctatcctaagcatttacagtacagttctacaagaacttttggtacagcaacatctgatgagatacaaaacaacatatcaatatgatgcggtgtttgctcttggttttgtgaccgtctatgaccaactcatggaagggtaccctagcaatgaggatagggatgcaatcttcaaagcatatataacagcgttaaacgaagaccctgagcaatacagagctgacgcacaaaagatggaagagtgggctcgttcccagaatggtaattctttagttgagttttcatccaaagatggagaaatagaggccattctgaaagatatttcagaaagggcccagggtaagggaagcttcagctacagccggttctttgcagttggcttgttccgtttgcttgagcttgcaaatgcaacagagccaaccatactagacaagctttgcgctgctctaaacatcaacaaaagaagtgtcgacagggatctcgatgtttaccggaacatactctccaaattggtccaggctaaggaacttctcaaggaatacgtggaaagggaaaagaagaagagagaggaaagatcagagaccccaaaatcgaatgaagctgttacgaaatttgacgggagtctcaattccatgaggcattaa</cdnaseq> |
| Protein Sequence |
<aaseq>MAAISSLPFAALRRAADCRPSTAAAAAGAGAGAVVLSVRPRRGS RSVVRCVATAGDVPPTVAETKMNFLKSYKRPILSIYSTVLQELLVQQHLMRYKTTYQY DAVFALGFVTVYDQLMEGYPSNEDRDAIFKAYITALNEDPEQYRADAQKMEEWARSQN GNSLVEFSSKDGEIEAILKDISERAQGKGSFSYSRFFAVGLFRLLELANATEPTILDK LCAALNINKRSVDRDLDVYRNILSKLVQAKELLKEYVEREKKKREERSETPKSNEAVT KFDGSLNSMRH</aaseq> |
| Gene Sequence |
<dnaseqindica>3706..3799#3297..3412#1955..2171#1241..1511#98..263#acgcgcctttttgcgcctaatttaccgttttacccctcgccggcggccgccgcactccggcgagagaatcggcagcaggtgggcgggggactccacgatggcggccatatcttcgcttcccttcgcggcactgcgccgggccgccgactgcaggccgtcgacggcggcggcggcggcgggggcgggggcgggggccgtcgtgctcagcgtgaggccccggcgggggtcgcgctcggtggtgcgctgcgtcgccacggcgggcggtgagcttgctcgctcgcgctctctctgttttttttctctcactcactggtgcttctggcgtcggtgatgaacacgtagtggtagtgcgttcgattgcgacagaagagcttctctttttgcgtgggggtttcactagcaaaatctggatcctggttcttcttggggatgctgcaagattgtttgtggcggggactacaagccaatctagcgtcctatgtttggaggaagaactggcaactgtgatttttgggtgaacaattagcatttgtagttgtgtatccatgcggttttgatgcttggttattctttctagcagggaattcatgtctgttttagatgcgagcttgggaatttttttagaatttcgtatcactagtttagccatatgtgattttcaacaatctagctgattttgatccacaaatagcgaagggtaggactattcagttgtgtatttgttttttgccgggtcggcgaaggagccgaccaaatttcattaagaatgaaaggagagtttacaagtttacacgacattaaactgtcgagccggggagaccccggagcagagaaacaggatcagttgtgtatttgcgccaatcatcttatgttagccaaacctcacaagccctggttagctgttcaggcctatgattcctgcttttctgttgaattgtggcagtaaactgccaaatgcttccttgtagaacgatttgatgcgtttacatatttccgctcatttcgttccacagtttcttcatggtgttctgttgcttctgccccctttcctgtcaactttcttcaattcatcgagcaagtgccgattacttgtcaagtatttgatactggatcattgtatgtccaaatgttttcagttattatgatcacaaaggcagcaactaacttataacatattgtacacagcatgatgaacaagttatcgccacagcgtttttcacttgttctgaatattgtgcagatgttccacccactgtcgcagaaacaaagatgaattttctcaagtcatacaagcgtcctatcctaagcatttacagtacagttctacaagaacttttggtacagcaacatctgatgagatacaaaacaacatatcaatatgatgcggtgtttgctcttggttttgtgaccgtctatgaccaactcatggaagggtaccctagcaatgaggatagggatgcaatcttcaaagcatatataacagcgttaaacgaagaccctgagcaatacaggtgcctactgtaacttacaactgttttttattcacagtgatgttagcatcttcttgttttatattcaattagatttctcataaccaaattgaaccttcaaacaatatcctacacttaattgatccaagtaatttttttatagatttatataattcacagccatgaattttcagcataaatattacccccaattcgttgaattcatatgtcaaccatagccttttcctatagagatagtagcaattatctatcttgccgctgtaaaaaatgtcacattttgcactatctatttgttgcatgctttgcttatttgtggatcaccaattatctgctttatttgcgtcaatgaaagctaatgtattattgggttactagtttgttttggcatcaacagaggtgtctttccaagcaatcatagtaagtgttttctgttctttcttcagagctgacgcacaaaagatggaagagtgggctcgttcccagaatggtaattctttagttgagttttcatccaaagatggagaaatagaggccattctgaaagatatttcagaaagggcccagggtaagggaagcttcagctacagccggttctttgcagttggcttgttccgtttgcttgagcttgcaaatgcaacagagccaaccatactagacaaggttgttattgccattaataattttgtttctgactatcatacttatttttgcttcacttccaaattatatcttctaataacgcttatgtgtgtttctcaagttatattttagagagcatgtttccaatacattttagttttcgcagaaagaaaggatttatctcaaatcaattaaggggttggcttgtgtctgctgtctaatatcttgcaaccacagctggttaagtgtctatgcggtgttctttttaacctactacttcgctgatatgctagattactagtaaaggactaagtctgactctattccatcctacagcgtacgggcctgtttggcacagttctaactccagttccgcctctcctggagttggagcccagccaaatagttcaactccacctaaaatgggagtggagctgggtggagcgctctcacaaaatgaactagagaggtggagcttgggtttaggcagctccacaactccactccgaacccaactcctagagttaaattttaggagttggagctctaccaaacatgccctccatacctattgactaagcctctgactcgactccatcatactttcctattgactaagcctcttactcgactccatcattcattcctatcacttcagaaccacagctcccacctctaaaatctaactaccctagctgagtgcgcacgaactgctttcctaaatatttctcctcaaacgttgaggttagcaaatgttctaatcgttatggcatgtgatcaactgacaattcaagtttgtgatggtttctattatttatgatgtttcttaagccagaataggaaatagcactaaggaggttcgagttcagttttggcttctaacttagtaccaatgttgggggcatatctggacttttctgtgggaggactcattggagatagggagattccatacaggataaaactccaaaagcattcttgaggcattctagtatagtacaagtcaagtaattttttcagtgtccaatgataatttcaggaaacatttaagccagttatgtttgtcatttggtgaactcaaaatgtaatgtgcactttgatgttacctacttacctcactaatattttcaatggcttccttgacagctttgcgctgctctaaacatcaacaaaagaagtgtcgacagggatctcgatgtttaccggaacatactctccaaattggtccaggctaaggaacttctcaaggaatacgtggaaaggtaaccaacttatccgctgatttcccacttctcttactgcccaaaccctgatttgttcaatcactgatattactaacgcacgagggatgttcctaattttattttgcaacaattgtgtgatattaatagctttatacttgaagtttactgtttagcacataaatctctcctctttcaatgagcccaggcaaatggattagtttatattgccttctctttacattttgtatcctccccagtttttctgtgttaaactgatcatctcaacgagttgaactcaactttgttggcagggaaaagaagaagagagaggaaagatcagagaccccaaaatcgaatgaagctgttacgaaatttgacgggagtctcaattccatgaggcattaactcaagccttcataaggggagtgagtgctaccgtggataacagattttaacagagttctggatcacgttgagaaactatcaaggtcacctttcactgcacggacactttggctgctctcgtgtggttttgtattctgccgtataaaaggatccagattgttcttactactgagcattatattttttttgt</dnaseqindica> |
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