Rice gene details
Searching for LOC_Os09g24990 [CAF1 family ribonuclease containing protein, 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_Os09g24990.1 281 15 248 PF04857.12 CAF1
2 LOC_Os09g24990.2 281 15 248 PF04857.12 CAF1
  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
  -1
IR64 Flag-leaf FC
  2
IR64InfloresenceFC
  2
IR64 Root FC
  2

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0004518 nuclease activity (RGAP)
2 GO:0003676 nucleic acid binding (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009408 response to heat  
2 GO:0009414 response to water deprivation  
3 GO:0009651 response to salt stress  
4 GO:0009737 response to abscisic acid stimulus  
5 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0005634 nucleus (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007048 sodium chloride regimen (+)
2 EO:0007105 abscisic acid regimen (+)
3 EO:0007173 warm/hot temperature regimen (+)
4 EO:0007174 cold temperature regimen (+)
5 EO:0007404 drought environment (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQBK037 spikelet number
2 CQE74 shoot elongation rate
3 AQCN011 plant height
4 AQCN012 plant height
5 AQCN013 grain yield per plant
6 CQS9 seminal root length
7 AQBM007 green plantlet differentiation frequency
8 AQBM010 green plantlet yield frequency
9 AQF016 seed dormancy
10 AQF022 seed dormancy
11 AQF033 seed dormancy
12 AQF050 awn length
13 AQF070 anther length
14 AQF081 grain yield
15 AQF115 apiculus hair length
16 AQF128 germination speed
17 AQF142 mesocotyl length
18 CQAH37 seed dormancy
19 CQAH38 seed dormancy
20 CQAH39 seed dormancy
21 CQE73 shoot elongation rate
22 AQAL006 deep root dry weight
23 AQEA109 plant height
24 AQEA110 plant height
25 AQEA111 plant height
26 AQEA112 plant height
27 AQEA113 plant height
28 AQEA114 plant height
29 AQEA115 plant height
30 AQEA116 plant height
31 AQEA117 plant height
32 AQEA118 plant height
33 AQEA119 plant height
34 AQEA120 plant height
35 AQEA121 plant height
36 AQEA279 days to heading
37 AQEA280 days to heading
38 AQEA281 days to heading
39 AQEA282 days to heading
40 AQEA283 days to heading
41 AQEA284 days to heading
42 AQEA285 days to heading
43 AQEA286 days to heading
44 AQEA287 days to heading
45 AQEA288 days to heading
46 AQEA289 days to heading
47 CQAI18 tiller number
48 CQAI23 root length
49 CQQ39 root weight
50 CQQ8 root weight
51 DQE42 relative growth rate
52 AQA015 tiller number
53 AQA020 root length
54 CQAX26 plant height
55 AQEP006 seedling vigor
56 AQBR003 days to heading
57 AQEM007 salt sensitivity
58 AQGG004 callus induction
59 AQAD002 sheath blight disease resistance
60 AQGI088 root dry weight
61 AQGI097 root dry weight
62 AQHR023 tiller number
63 AQAF038 blast disease resistance
64 AQAF039 blast disease resistance
65 AQAI004 leaf area
66 AQCA004 seed length
67 AQFJ010 panicle number
68 AQFJ049 panicle length

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 MCP:1000521 mature plant stage (+)
3 PO:0001054 4 leaf senescence stage (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0005004 shoot node (+)
2 PO:0009005 root (+)
3 PO:0009006 shoot system (+)
4 PO:0009051 spikelet (+)
5 PO:0020040 leaf base (+)
6 PO:0020104 leaf sheath (+)
7 PO:0020122 inflorescence axis (+)
8 PO:0025034 leaf (+)
9 PO:0025142 leaf tip (+)
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]

Chou Wei-Lun; Huang Li-Fen; Fang Jhen-Cheng; Yeh Ching-Hui; Hong Chwan-Yang; Wu Shaw-Jye; Lu Chung-An; Divergence of the expression and subcellular localization of CCR4-associated factor 1 (CAF1) deadenylase proteins in Oryza sativa. Plant molecular biology 2014:85
PMID [24805883]


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