Rice gene details
Searching for LOC_Os06g44230 [DNA-directed RNA polymerase 3A, 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_Os06g44230.1 954 561 953 PF00940.11 RNA_pol
  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
  1
N22InfloresenceFC
  -1
N22 Root FC
  5
IR64 Flag-leaf FC
  2
IR64InfloresenceFC
  1
IR64 Root FC
  -1

Functional details
Molecular Function
Not found
1 GO:0016740 transferase activity (RGAP)
2 GO:0003677 DNA binding (RGAP)
3 GO:0005515 protein binding (RGAP)
Biological process
Not found
1 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
2 GO:0009058 biosynthetic process (RGAP)
Cellular component
Not found
1 GO:0005739 mitochondrion (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007173 warm/hot temperature regimen (+)
2 EO:0007174 cold temperature regimen (+)
3 EO:0007332 cold air temperature regimen (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQBK042 seed number
2 AQBK045 seed set percent
3 AQAP029 brown planthopper resistance
4 AQCU019 plant height
5 AQDZ008 culm thickness
6 AQEB003 1000-seed weight
7 AQEB007 1000-seed weight
8 AQEB012 1000-seed weight
9 AQDZ014 lodging incidence
10 AQFP014 culm length
11 AQCU085 panicle length
12 AQCU135 leaf length
13 AQCU143 leaf width
14 AQCU155 spikelet number
15 AQCU187 days to heading
16 AQFE064 seed set percent
17 AQGM011 panicle length
18 CQAJ14 yield
19 CQAS66 plant height
20 AQEI112 leaf senescence
21 AQEI139 leaf senescence
22 AQEI142 leaf senescence
23 AQBS004 days to heading
24 AQBS033 spikelet number
25 AQBK006 spikelet number
26 CQC5 spikelet number
27 AQDU002 cold tolerance
28 AQEE041 head rice
29 AQEE043 cracked grain percentage
30 AQEI066 leaf senescence
31 AQEI113 leaf senescence
32 AQFJ072 grain yield per plant
33 AQGP039 days to heading
34 AQGP083 grain yield
35 CQAA2 leaf rolloing tolerance
36 CQAE11 panicle number
37 CQAF10 gelatinization temperature
38 CQX19 internode length
39 AQDY102 panicle number
40 AQBM001 callus induction
41 CQAW21 root number
42 CQAW22 root penetration index
43 CQAR22 spikelet number
44 CQAR23 spikelet density
45 AQAC014 total biomass yield
46 AQAC021 biomass yield
47 AQAG047 1000-seed weight
48 AQCB006 spikelet number
49 AQCB032 spikelets per panicle length
50 AQGI020 root dry weight
51 CQX14 panicle length
52 CQX23 internode length
53 CQX9 culm length
54 AQFA001 amylose content
55 AQDY087 panicle length
56 AQDY089 panicle length
57 AQDY091 panicle length
58 AQDY093 panicle length
59 AQDY096 panicle length
60 AQDY098 panicle length
61 AQDY103 panicle number
62 AQDY104 tiller number
63 AQDY105 tiller number
64 AQEK004 iron sensitivity
65 AQEK006 iron sensitivity
66 AQEK008 iron sensitivity
67 AQEK012 iron sensitivity
68 AQAW035 primary branch
69 AQCF035 panicle number
70 AQEJ062 leaf area
71 AQEJ064 leaf width
72 AQEJ066 leaf width
73 AQEE045 cracked grain percentage
74 AQGP049 panicle length
75 AQGP052 panicle number
76 AQGP073 1000-seed weight
77 AQJ006 panicle number

Plant developmental stage / tissue details
Plant development stage
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0001053 3 leaf fully expanded (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000316 third leaf from base (+)
2 PO:0000003 whole plant (+)
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  Jiang Quan; Mei Jie; Gong Xiao-Di; Xu Jian-Long; Zhang Jian-Hui; Teng Sheng; Lin Dong-Zhi; Dong Yan-Jun; Importance of the rice TCD9 encoding α subunit of chaperonin protein 60 (Cpn60α) for the chloroplast development during the early leaf stage. Plant science : an international journal of experimental plant biology 2014:215-216
PMID [24388528]


2  Song Jian; Wei Xiangjin; Shao Gaoneng; Sheng Zhonghua; Chen Daibo; Liu Congli; Jiao Guiai; Xie Lihong; Tang Shaoqing; Hu Peisong; The rice nuclear gene WLP1 encoding a chloroplast ribosome L13 protein is needed for chloroplast development in rice grown under low temperature conditions. Plant molecular biology 2014:84
PMID [24132771]


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