Rice gene details
Searching for LOC_Os03g60080 [NAC domain-containing protein 67, 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_Os03g60080.1 317 17 143 PF02365.7 NAM
  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
  7
N22InfloresenceFC
  2
N22 Root FC
  -2
IR64 Flag-leaf FC
  4
IR64InfloresenceFC
  8
IR64 Root FC
  1

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0016563 transcription activator activity  
2 GO:0003700 sequence-specific DNA binding transcription factor activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0006950 response to stress  
2 GO:0009409 response to cold  
3 GO:0009414 response to water deprivation  
4 GO:0009615 response to virus  
5 GO:0009633 drought tolerance  
6 GO:0009651 response to salt stress  
7 GO:0009737 response to abscisic acid stimulus  
8 GO:0042538 hyperosmotic salinity response  
9 GO:0009058 biosynthetic process (RGAP)
10 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
11 GO:0007275 multicellular organismal development (RGAP)
12 GO:0006950 response to stress (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:0007332 cold air temperature regimen (+)
4 EO:0007350 rice stripe virus (+)
5 EO:0007383 watering regimen (+)
6 EO:0007404 drought environment (+)
7 EO:0007407 methyl jasmonate (+)
8 MCE:1000016 polyethylene glycol (PEG) treatment (+)
9 MCE:1000069 dessication/dehydration stress (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 CQE26 carbon content
2 CQE27 grain number
3 CQF5 soluble protein 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 (+)
2 PO:0007041 inflorescence emergence from flag leaf sheath (+)
3 PO:0007098 LP.02 two leaves visible (+)
4 PO:0007632 seed maturation stage (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0000003 whole plant (+)
2 PO:0000372 metaxylem (+)
3 PO:0005702 aerenchyma (+)
4 PO:0008037 seedling (+)
5 PO:0009005 root (+)
6 PO:0009006 shoot system (+)
7 PO:0009025 vascular leaf (+)
8 PO:0025034 leaf (+)
9 PO:0025197 stele (+)
Others
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
Not found

Trait details
S. No. TO Id TO Description Presence(+) or absence(-) of gene expression /activity
1 MCT:1000015 photochemical efficiency (+)
2 MCT:1000228 grain filling rate (+)
3 MCT:1000390 stele size (+)
4 MCT:1000397 root diameter (+)
5 MCT:1000506 spikelet number per panicle (+)
6 MCT:1000539 metaxylem vessel size (+)
7 MCT:1000540 cortical aerenchyma size (+)
8 TO:0000040 panicle length (+)
9 TO:0000078 root dry weight (+)
10 TO:0000085 leaf rolling (+)
11 TO:0000152 panicle number (+)
12 TO:0000227 root length (+)
13 TO:0000233 root volume (+)
14 TO:0000447 filled grain number (+)
15 TO:0000456 spikelet number (+)
16 TO:0000576 stem length (+)
17 TO:0000590 grain weight (+)
18 TO:0000592 1000-dehulled grain weight (+)

Physical interaction details
Interaction type: protein-protein
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

Amino acid involved in interaction
1 LOC_Os03g60080 1-176 LOC_Os11g08210 - 1-328 Protein-protein interaction analysis : Pull Down Assay
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_Os03g60080 1-176 - to - S000413 Protein-DNA interaction analysis : Electrophoretic Mobility Shift Assay (EMSA)
      TSS - Transcriptional start site
TrSS - Translational start site
TSS-Pu - Putative TSS by cDNA alignment
TSS-P - Predicted TSS
Related publications [Sorted by year]

Wei Shuya; Hu Wei; Deng Xiaomin; Zhang Yingying; Liu Xiaodong; Zhao Xudong; Luo Qingchen; Jin Zhengyi; Li Yin; Zhou Shiyi; Sun Tao; Wang Lianzhe; Yang Guangxiao; He Guangyuan; A rice calcium-dependent protein kinase OsCPK9 positively regulates drought stress tolerance and spikelet fertility. BMC plant biology 2014:14
PMID [24884869]


Redillas Mark C F R; Jeong Jin S; Kim Youn S; Jung Harin; Bang Seung W; Choi Yang D; Ha Sun-Hwa; Reuzeau Christophe; Kim Ju-Kon; The overexpression of OsNAC9 alters the root architecture of rice plants enhancing drought resistance and grain yield under field conditions. Plant biotechnology journal 2012:10
PMID [22551450]


Du Hao; Liu Linhong; You Lei; Yang Mei; He Yubing; Li Xianghua; Xiong Lizhong; Characterization of an inositol 1,3,4-trisphosphate 5/6-kinase gene that is essential for drought and salt stress responses in rice. Plant Molecular Biology 2011:
PMID [22038091]


Tao Zeng; Kou Yanjun; Liu Hongbo; Li Xianghua; Xiao Jinghua; Wang Shiping; OsWRKY45 alleles play different roles in abscisic acid signalling and salt stress tolerance but similar roles in drought and cold tolerance in rice. Journal of experimental botany 2011:62
PMID [21725029]


Du Hao; Wang Nili; Cui Fei; Li Xianghua; Xiao Jinghua; Xiong Lizhong; Characterization of the beta-carotene hydroxylase gene DSM2 conferring drought and oxidative stress resistance by increasing xanthophylls and abscisic acid synthesis in rice. Plant Physiology 2010:154
PMID [20852032]


Nuruzzaman Mohammed; Manimekalai Ramaswamy; Sharoni Akhter Most; Satoh Kouji; Kondoh Hiroaki; Ooka Hisako; Kikuchi Shoshi; Genome-wide analysis of NAC transcription factor family in rice. Gene 2010:465
PMID [20600702]


Takasaki Hironori; Maruyama Kyonoshin; Kidokoro Satoshi; Ito Yusuke; Fujita Yasunari; Shinozaki Kazuo; Yamaguchi-Shinozaki Kazuko; Nakashima Kazuo; The abiotic stress-responsive NAC-type transcription factor OsNAC5 regulates stress-inducible genes and stress tolerance in rice. Molecular Genetics and Genomics 2010:284
PMID [20632034]


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