Rice gene details Home Browse Search Contact Us Feedback Links Searching for LOC_Os07g05940 [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_Os07g05940.1 583 76 575 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   16 N22InfloresenceFC   47 N22 Root FC   -2 IR64 Flag-leaf FC   15 IR64InfloresenceFC   132 IR64 Root FC   3 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:0008152 metabolic process (RGAP) 4 GO:0009058 biosynthetic process (RGAP) 5 GO:0009987 cellular process (RGAP) 6 GO:0006629 lipid metabolic 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:0007068 ethylene regimen (+) 3 EO:0007105 abscisic acid regimen (+) 4 EO:0007198 water environment (+) 5 EO:0007332 cold air temperature regimen (+) 6 EO:0007404 drought environment (+) 7 MCE:1000010 submergence stress (+) 8 MCE:1000016 polyethylene glycol (PEG) treatment (+) 9 MCE:1000044 mannitol (+) 10 MCE:1000069 dessication/dehydration stress (+) 11 MCE:1000241 D-glucose (+) 12 MCE:1000242 D-allose (+) Metabolic Pathway details S. No. Pathway Id Pathway Description 1 PWY-695 abscisic acid biosynthesis QTL details S. No. QTL Id QTL Associated Trait 1 AQGD029 pericarp color 2 AQGD030 pericarp color 3 AQGD028 pericarp color 4 CQE48 plant height 5 CQE49 plant height 6 CQE50 specific leaf area 7 CQN16 soluble protein content 8 CQN35 leaf senescence 9 CQN36 leaf senescence 10 AQED046 1000-seed weight 11 AQEE024 colored grain percentage 12 AQEE026 colored grain percentage 13 AQEE028 colored grain percentage 14 AQEE030 colored grain percentage 15 AQEE032 colored grain percentage 16 AQEE034 colored grain percentage 17 AQEE036 colored grain percentage 18 AQEE038 colored grain percentage 19 CQAS81 days to maturity 20 AQED003 days to heading 21 AQEE007 colored grain percentage 22 AQEE010 colored grain percentage 23 CQAW24 root number 24 CQAX8 plant height 25 CQAS91 yield 26 AQFA017 brown rice yield 27 AQF068 anther length 28 CQAH33 seed dormancy 29 AQBP004 gel consistency 30 AQAC008 germination speed 31 AQAF031 blast disease resistance 32 AQAF032 blast disease resistance 33 AQAG048 1000-seed weight 34 AQCB013 filled grain number 35 AQCQ018 1000-seed weight 36 AQCQ025 grain yield per plant 37 AQCQ041 1000-seed weight 38 AQEY012 1000-seed weight 39 AQEY018 1000-seed weight 40 AQGE011 grain width 41 AQGI230 total biomass yield 42 AQY003 plant height 43 CQAJ1 yield 44 CQAJ12 grain weight 45 CQAJ18 tiller number 46 CQAJ27 grain weight 47 CQAJ5 tiller number 48 CQAJ8 grain number 49 CQAL25 grain length 50 CQE51 space 51 CQE52 space to culm ratio 52 AQEM004 salt sensitivity 53 AQEM005 salt sensitivity 54 AQEM010 salt sensitivity 55 AQEM011 salt sensitivity 56 CQAD5 allelopathic effect Plant developmental stage / tissue details Plant development stage S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity 1 MCP:1000080 inflorescence 7-10cm stage (+) 2 MCP:1000107 post-germination stage (+) 3 MCP:1000204 5 days post-anthesis stage (+) 4 MCP:1000330 pre-anthesis stage (+) 5 MCP:1000376 15 days post-anthesis stage (+) 6 MCP:1000454 10 days post-anthesis stage (+) 7 MCP:1000473 20 days post-anthesis stage (+) 8 MCP:1000477 25 days post-anthesis stage (+) 9 MCP:1000505 30 days post-anthesis stage (+) 10 MCP:1000518 seedling development stage (+) 11 PO:0001012 G early unicellular microspore stage (+) 12 PO:0001040 dry seed stage (-) 13 PO:0007022 imbibition (+) 14 PO:0007065 LP.05 five leaves visible (+) 15 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:0009005 root (+) 4 PO:0009006 shoot system (+) 5 PO:0009010 seed (+) 6 PO:0009025 vascular leaf (+) 7 PO:0009046 flower (+) 8 PO:0009066 anther (+) 9 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  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] 2  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] 3  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] 4  Luo Chengke; Guo Chiming; Wang Wujing; Wang Liangjiang; Chen Liang; Overexpression of a new stress-repressive gene OsDSR2 encoding a protein with a DUF966 domain increases salt and simulated drought stress sensitivities and reduces ABA sensitivity in rice. Plant cell reports 2014:33 PMID [24247850] 5  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] 6  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] 7  Bang Seung Woon; Park Su-Hyun; Jeong Jin Seo; Kim Youn Shic; Jung Harin; Ha Sun-Hwa; Kim Ju-Kon; Characterization of the stress-inducible OsNCED3 promoter in different transgenic rice organs and over three homozygous generations. Planta 2013:237 PMID [23007553] 8  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] 9  Jeong Jin Seo; Kim Youn Shic; Redillas Mark C F R; Jang Geupil; Jung Harin; Bang Seung Woon; Choi Yang Do; Ha Sun-Hwa; Reuzeau Christophe; Kim Ju-Kon; OsNAC5 overexpression enlarges root diameter in rice plants leading to enhanced drought tolerance and increased grain yield in the field. Plant biotechnology journal 2012: PMID [23094910] 10  Liu Dongfeng; Chen Xujun; Liu Jiqin; Ye Jianchun; Guo Zejian; The rice ERF transcription factor OsERF922 negatively regulates resistance to Magnaporthe oryzae and salt tolerance. Journal of Experimental Botany 2012:63 PMID [22442415] 11  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] 12  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] 13  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] 14  Yaish Mahmoud W; El-Kereamy Ashraf; Zhu Tong; Beatty Perrin H; Good Allen G; Bi Yong-Mei; Rothstein Steven J; The APETALA-2-like transcription factor OsAP2-39 controls key interactions between abscisic acid and gibberellin in rice. PLoS genetics 2010:6 PMID [20838584] 15  Zhu Guohui; Ye Nenghui; Zhang Jianhua; Glucose-induced delay of seed germination in rice is mediated by the suppression of ABA catabolism rather than an enhancement of ABA biosynthesis. Plant & cell physiology 2009:50 PMID [19208695] 16  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] 17  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] 18  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