Rice gene details
Searching for LOC_Os09g11460 [AP2 domain containing protein, 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_Os09g11460.1 233 112 163 PF00847.12 AP2
2 LOC_Os09g11460.2 233 112 163 PF00847.12 AP2
  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
  1
N22 Root FC
  -1
IR64 Flag-leaf FC
  2
IR64InfloresenceFC
  1
IR64 Root FC
  3

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0003677 DNA binding (RGAP)
2 GO:0003700 sequence-specific DNA binding transcription factor activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009628 response to abiotic stimulus  
2 GO:0009723 response to ethylene stimulus  
3 GO:0009739 response to gibberellin stimulus  
4 GO:0030912 response to deep water  
5 GO:0008152 metabolic process (RGAP)
6 GO:0009058 biosynthetic process (RGAP)
7 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
8 GO:0006950 response to stress (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0005634 nucleus (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007024 aerobic environment (+)
2 EO:0007068 ethylene regimen (+)
3 EO:0007069 gibberellic acid regimen (+)
4 EO:0007105 abscisic acid regimen (+)
5 EO:0007187 salicylic acid regimen (+)
6 EO:0007270 continuous dark (no light) regimen (+)
7 EO:0007404 drought environment (+)
8 EO:0007407 methyl jasmonate (+)
9 MCE:1000010 submergence stress (+)
10 MCE:1000075 recovery treatment (+)
11 MCE:1000091 methyl viologen/paraquat (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQEK010 iron sensitivity
2 AQGB064 chalkiness of endosperm
3 AQGB065 chalkiness of endosperm
4 AQGB066 chalkiness of endosperm
5 AQGB067 chalkiness of endosperm
6 AQGB068 chalkiness of endosperm
7 AQGB069 chalkiness of endosperm
8 AQGB070 chalkiness of endosperm
9 AQGB071 chalkiness of endosperm
10 AQGB085 chalkiness of endosperm
11 AQGB086 chalkiness of endosperm
12 AQGB087 chalkiness of endosperm
13 AQGB096 chalkiness of endosperm
14 AQGB097 chalkiness of endosperm
15 AQGB098 chalkiness of endosperm
16 AQGB099 chalkiness of endosperm
17 AQGB100 chalkiness of endosperm
18 AQGB101 chalkiness of endosperm
19 AQGB102 chalkiness of endosperm
20 AQBM008 albino plantlet differentiation frequency
21 AQBY003 root length
22 AQBR002 days to heading
23 AQBK037 spikelet number
24 AQAQ005 blast disease resistance
25 AQAQ014 blast disease resistance
26 AQAQ022 blast disease resistance
27 AQCU149 panicle length
28 AQCU206 plant height
29 AQCU258 spikelet fertility
30 AQFW027 spikelet number
31 AQFW178 spikelet number
32 AQAI067 large vascular bundle number to spikelet number ratio
33 CQAW27 root number
34 CQE74 shoot elongation rate
35 AQCN011 plant height
36 AQCN012 plant height
37 AQCN013 grain yield per plant
38 CQAT1 submergence tolerance
39 AQD036 relative water content

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 (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000058 etiolated seedling (+)
2 PO:0008037 seedling (+)
3 PO:0009006 shoot system (+)
4 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
Not found
Related publications [Sorted by year]

1  Ma Biao; Yin Cui-Cui; He Si-Jie; Lu Xiang; Zhang Wan-Ke; Lu Tie-Gang; Chen Shou-Yi; Zhang Jin-Song; Ethylene-induced inhibition of root growth requires abscisic acid function in rice (Oryza sativa L.) seedlings. PLoS genetics 2014:10
PMID [25330236]


2  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]


3  Fukao Takeshi; Yeung Elaine; Bailey-Serres Julia; The Submergence Tolerance Regulator SUB1A Mediates Crosstalk between Submergence and Drought Tolerance in Rice. The Plant Cell 2011:23
PMID [21239643]


4  Jung Ki-Hong; Seo Young-Su; Walia Harkamal; Cao Peijian; Fukao Takeshi; Canlas Patrick E; Amonpant Fawn; Bailey-Serres Julia; Ronald Pamela C; The submergence tolerance regulator Sub1A mediates stress-responsive expression of AP2/ERF transcription factors. Plant Physiology 2010:152
PMID [20107022]


5  Fukao Takeshi; Xu Kenong; Ronald Pamela C; Bailey-Serres Julia; A variable cluster of ethylene response factor-like genes regulates metabolic and developmental acclimation responses to submergence in rice. The Plant Cell 2006:18
PMID [16816135]


6  Xu Kenong; Xu Xia; Fukao Takeshi; Canlas Patrick; Maghirang-Rodriguez Reycel; Heuer Sigrid; Ismail Abdelbagi M; Bailey-Serres Julia; Ronald Pamela C; Mackill David J; Sub1A is an ethylene-response-factor-like gene that confers submergence tolerance to rice. Nature 2006:442
PMID [16900200]


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