Rice gene details
Searching for LOC_Os09g36200 [senescence-inducible chloroplast stay-green protein 1, putative, expressed ]

Basic information [Interpro DB] Graphical representation of the protein domains
S. No. Locus Id Protein Length Doman Start Domain End Interpro ID Domain Name
1 LOC_Os09g36200.1 275 1 31 IPR010916 TONB_DEPENDENT_REC_1
2 LOC_Os09g36200.1 275 30 50 seg
3 LOC_Os09g36200.1 275 209 238 seg
  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
N22 Root FC
IR64 Flag-leaf FC
IR64 Root FC

Functional details
Molecular Function
S. No. GO Id GO Description
Biological process
S. No. GO Id GO Description
1 GO:0006950 response to stress  
2 GO:0009409 response to cold  
3 GO:0009416 response to light stimulus  
4 GO:0009651 response to salt stress  
5 GO:0009725 response to hormone stimulus  
6 GO:0009737 response to abscisic acid stimulus  
7 GO:0010106 cellular response to iron ion starvation  
8 GO:0008150 biological_process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0009536 plastid (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007048 sodium chloride regimen (+)
2 EO:0007105 abscisic acid regimen (+)
3 EO:0007173 warm/hot temperature regimen (+)
4 EO:0007187 salicylic acid regimen (+)
5 EO:0007270 continuous dark (no light) regimen (+)
6 EO:0007332 cold air temperature regimen (+)
7 EO:0007407 methyl jasmonate (+)
8 MCE:1000023 benzyl aminopurine (BPA) (+)
9 MCE:1000143 iron deficiency treatment (+)
10 MCE:1000171 nicotin amide (+)
11 MCE:1000203 dark regimen (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQBK037 spikelet number
2 CQE74 shoot elongation rate
3 AQF004 grain shattering
4 AQF040 seed dormancy
5 AQF071 anther length
6 AQF102 KClO3 resistance
7 AQFE116 tiller angle
8 CQAS108 panicle length
9 AQBK052 seed set percent
10 CQAS115 spikelet number
11 AQAI034 leaf area to spikelet number ratio
12 AQHR056 plant height
13 CQE75 space
14 CQE76 chlorophyll content
15 CQF12 soluble protein content
16 CQF13 rubisco content
17 AQGP021 spikelet number
18 AQGS010 panicle length
19 AQGS028 seed weight
20 AQGS031 grain yield per plant
21 CQAS117 yield
22 CQAW28 root number
23 AQFF014 total biomass yield
24 AQBK054 seed set percent
25 AQAA017 relative root length
26 AQCH001 tiller angle
27 CQAS113 seed set percent
28 CQAS114 1000-seed weight

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 MCP:1000521 mature plant stage (+)
3 PO:0001053 3 leaf fully expanded (+)
4 PO:0001054 4 leaf senescence stage (+)
5 PO:0007010 6 ripening (+)
6 PO:0007041 inflorescence emergence from flag leaf sheath (+)
7 PO:0007042 5 fruit formation (+)
8 PO:0007115 LP.04 four leaves visible (+)
9 PO:0007616 4 anthesis (+)
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:0020103 flag leaf (+)
4 PO:0025034 leaf (+)
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


Domain name/N or C term

Amino acid involved in interaction


Domain name/N or C term

involved in interaction
Reference point cis-elements [PLACE Id]
1 LOC_Os03g21060 - --- LOC_Os09g36200 - - - - Protein-DNA interaction analysis : Chromatin Immunoprecipitation (ChIP)
2 LOC_Os03g21060 - --- LOC_Os09g36200 - - - - 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]

Christoff Ana Paula; Turchetto-Zolet Andreia Carina; Margis Rogerio; Uncovering legumain genes in rice. Plant science : an international journal of experimental plant biology 2014:215-216
PMID [24388520]

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]

Ricachenevsky Felipe Klein; Sperotto Raul Antonio; Menguer Paloma Koprovski; Fett Janette Palma; Identification of Fe-excess-induced genes in rice shoots reveals a WRKY transcription factor responsive to Fe, drought and senescence. Molecular Biology Reports 2010:
PMID [20217243]

Sperotto Raul A; Ricachenevsky Felipe K; Duarte Guilherme L; Boff Tatiana; Lopes Karina L; Sperb Edilena R; Grusak Michael A; Fett Janette Palma; Identification of up-regulated genes in flag leaves during rice grain filling and characterization of OsNAC5, a new ABA-dependent transcription factor. Planta 2009:230
PMID [19697058]

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