Rice gene details
Searching for LOC_Os04g56400 [glutamine synthetase, catalytic 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_Os04g56400.1 429 73 153 PF03951.11 Gln-synt_N
2 LOC_Os04g56400.1 429 159 411 PF00120.16 Gln-synt_C
3 LOC_Os04g56400.3 323 73 153 PF03951.11 Gln-synt_N
4 LOC_Os04g56400.3 323 159 307 PF00120.16 Gln-synt_C
5 LOC_Os04g56400.4 312 73 153 PF03951.11 Gln-synt_N
6 LOC_Os04g56400.4 312 159 295 PF00120.16 Gln-synt_C
  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
  1
N22 Root FC
  -12
IR64 Flag-leaf FC
  2
IR64InfloresenceFC
  1
IR64 Root FC
  -4

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0003824 catalytic activity  
2 GO:0003824 catalytic activity (RGAP)
3 GO:0005515 protein binding (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009414 response to water deprivation  
2 GO:0009628 response to abiotic stimulus  
3 GO:0060359 response to ammonium ion  
4 GO:0006950 response to stress (RGAP)
5 GO:0009628 response to abiotic stimulus (RGAP)
6 GO:0008152 metabolic process (RGAP)
7 GO:0009987 cellular process (RGAP)
8 GO:0008150 biological_process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0016020 membrane (RGAP)
2 GO:0005576 extracellular region (RGAP)
3 GO:0009536 plastid (RGAP)
4 GO:0009579 thylakoid (RGAP)
5 GO:0005739 mitochondrion (RGAP)
6 GO:0005840 ribosome (RGAP)
7 GO:0005829 cytosol (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007097 ammonium sulfate regimen (+)
2 MCE:1000069 dessication/dehydration stress (+)
3 MCE:1000294 ammonium chloride (NH4) (+)

Metabolic Pathway details
S. No. Pathway Id Pathway Description
1 GLNSYN-PWY glutamine biosynthesis I
2 PWY-3282 ammonia assimilation cycle II
3 PWY-381 nitrate reduction II (assimilatory)

QTL details
S. No. QTL Id QTL Associated Trait
1 CQN14 soluble protein content
2 AQBK014 days to heading
3 AQGD023 hull color
4 AQGD025 hull color
5 AQGD027 hull color
6 CQAX33 plant height
7 CQAS44 panicle number
8 CQAS46 spikelet density
9 CQAS47 seed number
10 CQAS49 1000-seed weight
11 CQAS51 seed number
12 CQAX21 plant height
13 CQAC2 blast disease resistance
14 CQN13 nadh-dependent glutamate synthase content
15 CQN32 leaf senescence
16 CQE34 panicle number
17 AQBY002 root length
18 AQP006 primary branch
19 AQP010 spikelet number
20 CQB8 grain number
21 AQDB002 chlorophyll content
22 AQDQ031 panicle number
23 AQDQ030 panicle number
24 AQDQ034 seed weight
25 AQEO011 seed length
26 AQEO021 100-seed weight
27 CQAW11 root number
28 CQAS50 spikelet number
29 CQAS52 yield
30 AQF098 KClO3 resistance
31 CQAH18 grain shattering
32 AQCF005 spikelet number
33 AQCF006 grain yield
34 AQA016 root length
35 AQCN009 plant height
36 AQDQ038 grain yield per plant
37 AQGL003 sheath blight disease resistance
38 AQGL009 sheath blight disease resistance
39 AQGL015 sheath blight disease resistance
40 AQJ007 spikelet number
41 CQAI19 root length
42 CQAO11 1000-seed weight
43 CQAO5 panicle number
44 CQAQ10 primary branch
45 AQDQ033 seed weight
46 AQDQ035 seed weight
47 AQDQ036 grain yield per plant
48 AQDQ037 grain yield per plant
49 AQDQ039 plant height
50 AQFF038 spikelet sterility
51 CQH21 root pulling force
52 AQCU074 leaf length
53 AQCU216 leaf length
54 AQEA073 plant height
55 AQEA074 plant height
56 AQEA075 plant height
57 AQEA076 plant height
58 AQEA077 plant height
59 AQEA078 plant height
60 AQEA079 plant height
61 AQEA080 plant height
62 AQEA081 plant height
63 AQEA082 plant height
64 AQFW139 plant height
65 AQFW151 leaf length
66 CQAS48 seed set percent
67 CQV17 plant height
68 AQFU010 rice bran percentage
69 AQEI057 leaf senescence
70 AQEI058 leaf senescence
71 AQO039 root thickness
72 AQGI113 biomass yield
73 AQCU140 leaf length
74 AQFW103 panicle length
75 AQFW146 leaf length
76 AQFW159 leaf width

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:0007115 LP.04 four leaves visible (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0009005 root (+)
2 PO:0009006 shoot system (+)
3 PO:0009047 stem (+)
4 PO:0025034 leaf (+)
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:1000049 glutamine synthetase (GS) activity (+)

Physical interaction details
Interaction type: protein-protein
Not found
Interaction type: protein-DNA
Not found
Related publications [Sorted by year]

1  Ranathunge Kosala; El-Kereamy Ashraf; Gidda Satinder; Bi Yong-Mei; Rothstein Steven J; AMT1;1 transgenic rice plants with enhanced NH4 + permeability show superior growth and higher yield under optimal and suboptimal NH4 + conditions. Journal of experimental botany 2014:65
PMID [24420570]


2  Funayama Kazuhiro; Kojima Soichi; Tabuchi-Kobayashi Mayumi; Sawa Yuki; Nakayama Yosuke; Hayakawa Toshihiko; Yamaya Tomoyuki; Cytosolic glutamine synthetase1;2 is responsible for the primary assimilation of ammonium in rice roots. Plant & cell physiology 2013:
PMID [23509111]


3  Singh Kamal Krishna; Ghosh Shilpi; Regulation of glutamine synthetase isoforms in two differentially drought-tolerant rice (Oryza sativa L.) cultivars under water deficit conditions. Plant Cell Reports 2012:
PMID [23070303]


4  Wan Liyun; Zhang Jianfei; Zhang Haiwen; Zhang Zhijin; Quan Ruidang; Zhou Shirong; Huang Rongfeng; Transcriptional activation of OsDERF1 in OsERF3 and OsAP2-39 negatively modulates ethylene synthesis and drought tolerance in rice. Plos One 2011:6
PMID [21966459]


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