Rice gene details
Searching for LOC_Os05g39770 [aminotransferase, 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_Os05g39770.1 481 84 417 PF00202.13 Aminotran_3
2 LOC_Os05g39770.2 451 84 417 PF00202.13 Aminotran_3
  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
  20
N22InfloresenceFC
  4
N22 Root FC
  -1
IR64 Flag-leaf FC
  -1
IR64InfloresenceFC
  1
IR64 Root FC
  -1

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0016740 transferase activity (RGAP)
2 GO:0003824 catalytic activity (RGAP)
3 GO:0005488 binding (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009725 response to hormone stimulus  
2 GO:0009737 response to abscisic acid stimulus  
3 GO:0009991 response to extracellular stimulus (RGAP)
4 GO:0007154 cell communication (RGAP)
5 GO:0008152 metabolic process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0005739 mitochondrion (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007105 abscisic acid regimen (+)
2 MCE:1000203 dark regimen (+)

Metabolic Pathway details
S. No. Pathway Id Pathway Description
1 FASYN-INITIAL-PWY fatty acid biosynthesis - initial steps
2 GLUDEG-I-PWY glutamate degradation III
3 PWY-5188 tetrapyrrole biosynthesis I

QTL details
S. No. QTL Id QTL Associated Trait
1 AQBK013 days to heading
2 CQAS62 1000-seed weight
3 CQAW17 root number
4 AQFP018 culm strength
5 AQBK016 days to heading
6 CQAS56 panicle length
7 CQAS59 spikelet density
8 AQEP016 seedling vigor
9 DQE50 relative water content
10 AQEE015 head rice
11 AQEE019 cracked grain percentage
12 AQDR018 grain yield per panicle
13 AQDQ047 grain yield per plant
14 AQDQ048 grain yield per plant
15 AQDQ049 seed weight
16 AQDQ050 seed weight
17 AQE042 grain yield per panicle
18 AQCO006 spikelet fertility
19 AQCP006 spikelet fertility
20 CQX28 internode length
21 CQAG22 setback
22 AQGI228 total biomass yield
23 AQHR014 tiller number
24 AQAD001 sheath blight disease resistance
25 AQAG034 1000-seed weight
26 AQAI021 large vascular bundle number
27 AQCQ022 grain yield per plant
28 CQAJ20 grain number
29 AQBK015 days to heading
30 AQBK018 days to heading
31 CQAA19 relative phosphorus distribution between shoot and root
32 AQDZ002 lodging incidence
33 AQDZ013 lodging incidence
34 CQAS53 plant height
35 AQAK029 1000-seed weight
36 AQCF007 1000-seed weight
37 AQCF018 1000-seed weight
38 AQCF032 filled grain number
39 AQCF033 spikelet number
40 AQCF034 1000-seed weight
41 AQBK017 days to heading
42 CQAA18 relative phosphorus distribution between shoot and root
43 AQFE063 seed set percent
44 AQX002 primary branch
45 AQA032 root volume
46 AQBC045 tiller number
47 AQBC046 tiller number
48 CQAI35 root volume
49 DQE23 leaf rolling
50 DQE24 leaf rolling
51 DQE25 leaf rolling
52 DQE6 leaf drying
53 CQAE10 plant height
54 AQAP043 brown planthopper resistance
55 AQCE028 primary branch length
56 AQCU197 plant height
57 AQCU212 leaf length
58 AQFW218 leaf width
59 AQFU013 milled rice ratio
60 AQFD012 tiller bud dormancy
61 AQFD015 tiller bud dormancy

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:0001053 3 leaf fully expanded (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0008037 seedling (+)
2 PO:0009025 vascular leaf (+)
3 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
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_Os03g21060 - --- LOC_Os05g39770 - - - - Protein-DNA interaction analysis : Chromatin Immunoprecipitation (ChIP)
      TSS - Transcriptional start site
TrSS - Translational start site
TSS-Pu - Putative TSS by cDNA alignment
TSS-P - Predicted TSS
Related publications [Sorted by year]

Liang Chengzhen; Wang Yiqin; Zhu Yana; Tang Jiuyou; Hu Bin; Liu Linchuan; Ou Shujun; Wu Hongkai; Sun Xiaohong; Chu Jinfang; Chu Chengcai; OsNAP connects abscisic acid and leaf senescence by fine-tuning abscisic acid biosynthesis and directly targeting senescence-associated genes in rice. Proceedings of the National Academy of Sciences of the United States of America 2014:111
PMID [24951508]


Yamatani Hiroshi; Sato Yutaka; Masuda Yu; Kato Yusuke; Morita Ryouhei; Fukunaga Kenji; Nagamura Yoshiaki; Nishimura Minoru; Sakamoto Wataru; Tanaka Ayumi; Kusaba Makoto; NYC4, the rice ortholog of Arabidopsis THF1, is involved in the degradation of chlorophyll-protein complexes during leaf senescence. The Plant journal 2013:
PMID [23432654]


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