Rice gene details
Searching for LOC_Os10g25030 [red chlorophyll catabolite reductase, putative, expressed ]

Basic information [Pfam DB] Graphical representation of the protein domains
S. No. Locus Id Protein Length Doman Start Domain End Pfam ID Domain Name
1 LOC_Os10g25030.1 330 69 324 PF06405.3 RCC_reductase
  The basic information is from RGAP and Pfam/InterPro databases

Gene model (download)
IR64 N22

Gene Expression (RNASeq data) in two varieties N22 & IR64 [FC=Fold Change]
N22 Flag-leaf FC
  -3
N22InfloresenceFC
  2
N22 Root FC
  1
IR64 Flag-leaf FC
  1
IR64InfloresenceFC
  1
IR64 Root FC
  1

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0003824 catalytic activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009725 response to hormone stimulus  
2 GO:0009737 response to abscisic acid stimulus  
3 GO:0006950 response to stress (RGAP)
4 GO:0009607 response to biotic stimulus (RGAP)
5 GO:0008152 metabolic process (RGAP)
6 GO:0008219 cell death (RGAP)
7 GO:0009987 cellular process (RGAP)
8 GO:0009056 catabolic process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0005737 cytoplasm (RGAP)
2 GO:0005829 cytosol (RGAP)
3 GO:0005739 mitochondrion (RGAP)
4 GO:0009536 plastid (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007105 abscisic acid regimen (+)
2 EO:0007187 salicylic acid regimen (+)
3 EO:0007270 continuous dark (no light) regimen (+)
4 EO:0007407 methyl jasmonate (+)
5 MCE:1000203 dark regimen (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQBK020 days to heading
2 AQBK027 plant height
3 AQBK053 seed set percent
4 AQBK043 seed number
5 AQBK051 seed set percent
6 AQBK055 seed set percent
7 AQBI003 days to heading
8 AQBI006 pollen fertility
9 AQAP024 brown planthopper resistance
10 AQAP044 brown planthopper resistance
11 AQAP058 brown planthopper resistance
12 AQCU176 spikelet fertility
13 AQAM031 rhizome number
14 AQAM032 rhizome length
15 AQAM033 rhizome internode length
16 AQAM034 rhizome internode number
17 AQAM035 rhizome dry weight
18 AQDJ005 plant height
19 AQDJ014 internode length
20 AQDJ017 internode length
21 AQCI003 phosphorus sensitivity
22 AQEB004 1000-seed weight
23 AQEB008 1000-seed weight
24 AQEB013 1000-seed weight
25 AQFJ069 grain yield per plant
26 AQGP005 days to heading
27 CQAE13 spikelet fertility
28 AQHQ011 days to flower
29 AQHQ020 days to flower
30 CQAS127 1000-seed weight
31 CQAS130 yield
32 CQAX9 plant height
33 AQDL008 days to heading
34 DQC17 penetrated to total root ratio
35 CQAS125 seed number
36 AQJ010 seed weight
37 AQEJ046 leaf area
38 AQEJ048 leaf width
39 AQEJ050 leaf area
40 AQEJ052 leaf width
41 AQEJ054 leaf area
42 AQEJ082 root activity
43 CQAS123 spikelet number
44 CQAS124 spikelet density
45 AQFD002 phyllochron

Plant developmental stage / tissue details
Plant development stage
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000518 seedling development stage (+)
2 PO:0001053 3 leaf fully expanded (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0008037 seedling (+)
2 PO:0009025 vascular leaf (+)
3 PO:0025034 leaf (+)
Others
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
Not found

Trait details
Not found

Physical interaction details
Interaction type: protein-protein
Not found
Interaction type: protein-DNA
S. No. Primary rice gene loci

Interacting rice gene loci

Experiment type

Id

Domain name/N or C term

Amino acid involved in interaction

Id

Domain name/N or C term

Bases
involved in interaction
Reference point cis-elements [PLACE Id]
1 LOC_Os03g21060 - --- LOC_Os10g25030 - - - - Protein-DNA interaction analysis : Chromatin Immunoprecipitation (ChIP)
2 LOC_Os03g21060 - --- LOC_Os10g25030 - - - - Protein-DNA interaction analysis : Yeast one-hybrid analysis
      TSS - Transcriptional start site
TrSS - Translational start site
TSS-Pu - Putative TSS by cDNA alignment
TSS-P - Predicted TSS
Related publications [Sorted by year]

Liang Chengzhen; Wang Yiqin; Zhu Yana; Tang Jiuyou; Hu Bin; Liu Linchuan; Ou Shujun; Wu Hongkai; Sun Xiaohong; Chu Jinfang; Chu Chengcai; OsNAP connects abscisic acid and leaf senescence by fine-tuning abscisic acid biosynthesis and directly targeting senescence-associated genes in rice. Proceedings of the National Academy of Sciences of the United States of America 2014:111
PMID [24951508]


Yamatani Hiroshi; Sato Yutaka; Masuda Yu; Kato Yusuke; Morita Ryouhei; Fukunaga Kenji; Nagamura Yoshiaki; Nishimura Minoru; Sakamoto Wataru; Tanaka Ayumi; Kusaba Makoto; NYC4, the rice ortholog of Arabidopsis THF1, is involved in the degradation of chlorophyll-protein complexes during leaf senescence. The Plant journal 2013:
PMID [23432654]


Fukao Takeshi; Yeung Elaine; Bailey-Serres Julia; The submergence tolerance gene, SUB1A, delays leaf senescence under prolonged darkness through hormonal regulation in rice. Plant Physiology 2012:
PMID [23073696]


Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi-110021, India