Rice gene details
Searching for LOC_Os12g42280 [9-cis-epoxycarotenoid dioxygenase 1, chloroplast precursor, 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_Os12g42280.1 614 110 606 PF03055.7 RPE65
  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
  -2
N22InfloresenceFC
  8
N22 Root FC
  -3
IR64 Flag-leaf FC
  -1
IR64InfloresenceFC
  2
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:0009409 response to cold  
2 GO:0030912 response to deep water  
3 GO:0006950 response to stress (RGAP)
4 GO:0009628 response to abiotic stimulus (RGAP)
5 GO:0008152 metabolic process (RGAP)
6 GO:0009058 biosynthetic process (RGAP)
7 GO:0009987 cellular process (RGAP)
8 GO:0006629 lipid metabolic process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0016020 membrane (RGAP)
2 GO:0009536 plastid (RGAP)
3 GO:0009579 thylakoid (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007048 sodium chloride regimen (+)
2 EO:0007068 ethylene regimen (+)
3 EO:0007105 abscisic acid regimen (+)
4 EO:0007332 cold air temperature regimen (+)
5 EO:0007404 drought environment (+)
6 MCE:1000010 submergence stress (+)
7 MCE:1000069 dessication/dehydration stress (+)
8 MCE:1000241 D-glucose (+)
9 MCE:1000242 D-allose (+)

Metabolic Pathway details
S. No. Pathway Id Pathway Description
1 PWY-1042 glycolysis IV (plant cytosol)
2 PWY-361 phenylpropanoid biosynthesis
3 PWY-3801 sucrose degradation to ethanol and lactate (anaerobic)
4 PWY-695 abscisic acid biosynthesis

QTL details
Not found

Plant developmental stage / tissue details
Plant development stage
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000204 5 days post-anthesis stage (+)
2 MCP:1000330 pre-anthesis stage (+)
3 MCP:1000376 15 days post-anthesis stage (+)
4 MCP:1000454 10 days post-anthesis stage (+)
5 MCP:1000473 20 days post-anthesis stage (+)
6 MCP:1000477 25 days post-anthesis stage (+)
7 MCP:1000505 30 days post-anthesis stage (+)
8 MCP:1000518 seedling development stage (+)
9 PO:0001012 G early unicellular microspore stage (+)
10 PO:0007022 imbibition (+)
11 PO:0007065 LP.05 five leaves visible (+)
12 PO:0007616 4 anthesis (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0000003 whole plant (+)
2 PO:0008037 seedling (+)
3 PO:0009006 shoot system (+)
4 PO:0009010 seed (+)
5 PO:0009066 anther (+)
6 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]

Du Hao; Chang Yu; Huang Fei; Xiong Lizhong; GID1 modulates stomatal response and submergence tolerance involving ABA and GA signaling in rice. Journal of integrative plant biology 2014:
PMID [25418692]


Endo Akira; Nelson Ken M; Thoms Ken; Abrams Suzanne R; Nambara Eiji; Sato Yutaka; Functional characterization of xanthoxin dehydrogenase in rice. Journal of plant physiology 2014:171
PMID [25014258]


Liu Yang; Fang Jun; Xu Fan; Chu Jinfang; Yan Cunyu; Schläppi Michael R; Wang Youping; Chu Chengcai; Expression patterns of ABA and GA metabolism genes and hormone levels during rice seed development and imbibition: a comparison of dormant and non-dormant rice cultivars. Journal of genetics and genomics = Yi chuan xue bao 2014:41
PMID [24976122]


Xiong Haiyan; Li Jinjie; Liu Pengli; Duan Junzhi; Zhao Yan; Guo Xiao; Li Yang; Zhang Hongliang; Ali Jauhar; Li Zichao; Overexpression of OsMYB48-1, a novel MYB-related transcription factor, enhances drought and salinity tolerance in rice. PloS one 2014:9
PMID [24667379]


Fukumoto Takeshi; Kano Akihito; Ohtani Kouhei; Inoue Megumi; Yoshihara Akihide; Izumori Ken; Tajima Shigeyuki; Shigematsu Yoshio; Tanaka Keiji; Ohkouchi Takeo; Ishida Yutaka; Nishizawa Yoko; Tada Yasuomi; Ichimura Kazuya; Gomi Kenji; Yoo Sang-Dong; Sheen Jen; Akimitsu Kazuya; Phosphorylation of D-allose by hexokinase involved in regulation of OsABF1 expression for growth inhibition in Oryza sativa L. Planta 2013:
PMID [23397192]


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]


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]


Welsch Ralf; Wüst Florian; Bär Cornelia; Al-Babili Salim; Beyer Peter; A third phytoene synthase is devoted to abiotic stress-induced abscisic acid formation in rice and defines functional diversification of phytoene synthase genes. Plant Physiology 2008:147
PMID [18326788]


Oliver Sandra N; Dennis Elizabeth S; Dolferus Rudy; ABA regulates apoplastic sugar transport and is a potential signal for cold-induced pollen sterility in rice. Plant & cell physiology 2007:48
PMID [17693452]


10  Saika Hiroaki; Okamoto Masanori; Miyoshi Kentaro; Kushiro Tetsuo; Shinoda Shoko; Jikumaru Yusuke; Fujimoto Masaru; Arikawa Taku; Takahashi Hirokazu; Ando Miho; Arimura Shin-Ichi; Miyao Akio; Hirochika Hirohiko; Kamiya Yuji; Tsutsumi Nobuhiro; Nambara Eiji; Nakazono Mikio; Ethylene promotes submergence-induced expression of OsABA8ox1, a gene that encodes ABA 8'-hydroxylase in rice. Plant & cell physiology 2007:48
PMID [17205969]


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