Rice gene details
Searching for LOC_Os02g56120 [OsIAA9 - Auxin-responsive Aux/IAA gene family member, 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_Os02g56120.1 183 76 127 PF02309.8 AUX_IAA
2 LOC_Os02g56120.1 183 150 180 PF02309.8 AUX_IAA
3 LOC_Os02g56120.2 183 76 127 PF02309.8 AUX_IAA
4 LOC_Os02g56120.2 183 150 180 PF02309.8 AUX_IAA
5 LOC_Os02g56120.3 170 76 127 PF02309.8 AUX_IAA
6 LOC_Os02g56120.3 170 150 169 PF02309.8 AUX_IAA
  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
1 GO:0005515 protein binding (RGAP)
2 GO:0003700 sequence-specific DNA binding transcription factor activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009416 response to light stimulus  
2 GO:0009733 response to auxin stimulus  
3 GO:0009741 response to brassinosteroid stimulus  
4 GO:0009753 response to jasmonic acid stimulus  
5 GO:0007275 multicellular organismal development (RGAP)
6 GO:0009058 biosynthetic process (RGAP)
7 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
8 GO:0009719 response to endogenous stimulus (RGAP)
9 GO:0009790 embryo development (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:0007048 sodium chloride regimen (+)
2 EO:0007069 gibberellic acid regimen (+)
3 EO:0007070 indole acetic acid regimen (+)
4 EO:0007080 jasmonic acid regimen (+)
5 EO:0007105 abscisic acid regimen (+)
6 EO:0007162 continuous light regimen (+)
7 EO:0007180 2,4-dichlorophenoxyacetic acid (+)
8 EO:0007270 continuous dark (no light) regimen (+)
9 EO:0007290 kinetin regimen (+)
10 EO:0007404 drought environment (+)
11 MCE:1000063 epibrassinolide (+)
12 MCE:1000173 cadmium nutrient regimen (+)
13 MCE:1000203 dark regimen (+)
14 MCE:1000245 2′-amino-3′-methoxyflavone (PD98059) (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 CQN6 nadh-dependent glutamate synthase content
2 CQAO17 spikelet density
3 CQAE7 plant height
4 CQAE16 grain number
5 AQBC009 plant height
6 AQFR024 seedling vigor
7 AQFR016 seedling vigor
8 AQCU121 days to heading
9 AQCU116 days to heading
10 AQCU035 panicle length
11 AQCU023 leaf length
12 AQBT001 bacterial blight disease resistance
13 AQGS025 seed weight
14 AQGS017 grain number
15 AQGS011 spikelet number
16 AQGS008 panicle length
17 AQE012 filled grain number
18 AQQ006 grain yield
19 AQQ002 grain yield
20 AQEX029 total biomass yield
21 AQEX022 root dry weight
22 AQEX016 biomass yield
23 AQCB015 seed set percent
24 AQED049 grain yield per plant
25 AQED031 grain number
26 AQCR002 grain yield
27 CQN59 spikelet weight
28 AQEB010 1000-seed weight
29 AQEB005 1000-seed weight
30 AQEB001 1000-seed weight
31 AQFA005 amylose content
32 CQAX27 plant height
33 AQBK012 days to heading
34 AQE024 grain yield per plant

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:0007106 LP.03 three leaves visible (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0000003 whole plant (+)
2 PO:0005052 plant callus (+)
3 PO:0008037 seedling (+)
4 PO:0009005 root (+)
5 PO:0009006 shoot system (+)
6 PO:0009025 vascular leaf (+)
7 PO:0009046 flower (+)
8 PO:0020032 plumule (+)
9 PO:0020033 coleoptile (+)
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
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

Amino acid involved in interaction
1 LOC_Os01g08320 --- LOC_Os02g56120 - --- Protein-protein interaction analysis : Yeast two-hybrid analysis
Interaction type: protein-DNA
Not found
Related publications [Sorted by year]

Xu Yanxia; Zhang Saina; Guo Haipeng; Wang Suikang; Xu Ligen; Li Chuanyou; Qian Qian; Chen Fan; Geisler Markus; Qi Yanhua; Jiang De An; OsABCB14 functions in auxin transport and iron homeostasis in rice (Oryza sativa L.). The Plant journal : for cell and molecular biology 2014:79
PMID [24798203]

Kang Bo; Zhang Zhongchen; Wang Lingling; Zheng Libin; Mao Weihua; Li Meifei; Wu Yunrong; Wu Ping; Mo Xiaorong; OsCYP2, a chaperone involved in AUX/IAA degradation, plays crucial roles in rice lateral root initiation. The Plant journal 2013:
PMID [23289750]

Zhao Feng Yun; Hu Fan; Zhang Shi Yong; Wang Kai; Zhang Cheng Ren; Liu Tao; MAPKs regulate root growth by influencing auxin signaling and cell cycle-related gene expression in cadmium-stressed rice. Environmental Science and Pollution Research International 2013:
PMID [23430734]

Du Hao; Wu Nai; Fu Jing; Wang Shiping; Li Xianghua; Xiao Jinghua; Xiong Lizhong; A GH3 family member, OsGH3-2, modulates auxin and abscisic acid levels and differentially affects drought and cold tolerance in rice. Journal of Experimental Botany 2012:
PMID [23112280]

Yang Xi; Yang Ya-Nan; Xue Liang-Jiao; Zou Mei-Juan; Liu Jian-Jing; Chen Fan; Xue Hong-Wei; Rice ABI5-like1 Regulates ABA and Auxin Responses by Affecting the Expression of ABRE-Containing Genes. Plant Physiology 2011:
PMID [21546455]

Song Yaling; Wang Lei; Xiong Lizhong; Comprehensive expression profiling analysis of OsIAA gene family in developmental processes and in response to phytohormone and stress treatments. Planta 2009:229
PMID [19034497]

Song Yaling; You Jun; Xiong Lizhong; Characterization of OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis. Plant Molecular Biology 2009:70
PMID [19266169]

Jain Mukesh; Kaur Navneet; Garg Rohini; Thakur Jitendra K; Tyagi Akhilesh K; Khurana Jitendra P; Structure and expression analysis of early auxin-responsive Aux/IAA gene family in rice (Oryza sativa). Functional & Integrative Genomics 2006:6
PMID [16200395]

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