Rice gene details
Searching for LOC_Os06g10580 [cyclic nucleotide-gated ion channel, 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_Os06g10580.1 736 220 485 PF00520.23 Ion_trans
2 LOC_Os06g10580.1 736 585 689 PF00027.21 cNMP_binding
3 LOC_Os06g10580.2 736 220 485 PF00520.23 Ion_trans
4 LOC_Os06g10580.2 736 585 689 PF00027.21 cNMP_binding
  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
  -2
N22 Root FC
  -2
IR64 Flag-leaf FC
  2
IR64InfloresenceFC
  3
IR64 Root FC
  -1

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0000166 nucleotide binding (RGAP)
2 GO:0005215 transporter activity (RGAP)
3 GO:0005515 protein binding (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009617 response to bacterium  
2 GO:0009723 response to ethylene stimulus  
3 GO:0009735 response to cytokinin stimulus  
4 GO:0006810 transport (RGAP)
5 GO:0009987 cellular process (RGAP)
6 GO:0009607 response to biotic stimulus (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0016020 membrane (RGAP)
2 GO:0009536 plastid (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007068 ethylene regimen (+)
2 EO:0007070 indole acetic acid regimen (+)
3 EO:0007105 abscisic acid regimen (+)
4 EO:0007198 water environment (+)
5 EO:0007234 Pseudomonas fuscovaginae (+)
6 EO:0007257 Xanthomonas oryzae pv. oryzae (+)
7 EO:0007290 kinetin regimen (+)
8 EO:0007332 cold air temperature regimen (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 CQX3 days to heading
2 CQE43 ratooning ability
3 CQI6 sodium concentration
4 AQEN005 blast disease resistance
5 CQAW19 root number
6 AQCF008 filled grain number
7 AQCF009 spikelet number
8 AQCF010 grain yield
9 AQCF019 filled grain number
10 AQCF020 spikelet number
11 AQCF021 grain yield
12 AQCF036 filled grain number
13 AQCF037 spikelet number
14 AQCF038 spikelet fertility
15 AQCF039 1000-seed weight
16 AQCF040 grain yield
17 AQGJ005 blast disease resistance
18 AQGJ023 blast disease resistance
19 AQDY078 panicle length
20 AQDY082 panicle length
21 AQDY083 panicle length
22 AQX010 secondary branch
23 AQT015 seed length
24 AQBK042 seed number
25 AQBK045 seed set percent
26 AQDR007 1000-seed weight
27 AQBS012 days to maturity
28 AQEO002 spikelet number
29 AQAP029 brown planthopper resistance
30 AQCU019 plant height
31 AQDZ008 culm thickness
32 AQEB003 1000-seed weight
33 AQEB007 1000-seed weight
34 AQEB012 1000-seed weight
35 AQDZ014 lodging incidence
36 AQEK011 iron sensitivity
37 CQAM2 brown planthopper resistance
38 CQAM4 brown planthopper resistance
39 CQAS74 seed set percent
40 AQAY003 aluminum sensitivity
41 AQF013 seed dormancy
42 AQF021 seed dormancy
43 AQF030 seed dormancy
44 AQF077 grain yield
45 AQF112 apiculus hair length
46 AQF113 apiculus hair length
47 CQAH25 seed dormancy
48 CQAH26 seed dormancy
49 CQAH27 seed dormancy
50 AQCY057 filled grain number
51 AQCY083 filled grain number
52 AQCY118 filled grain number
53 AQGI265 total biomass yield
54 AQFP014 culm length
55 AQEI022 leaf senescence
56 AQHF012 leaf area
57 AQHF036 leaf area
58 AQAK019 spikelet number
59 AQEJ085 root activity
60 AQEE023 gel consistency
61 AQFR031 seedling vigor
62 CQAG19 consistency viscosity
63 CQAG5 hot paste viscosity
64 CQAG9 cool paste viscosity
65 AQFU019 alkali digestion
66 AQFU027 seed length to width ratio

Plant developmental stage / tissue details
Plant development stage
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0007106 LP.03 three leaves visible (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 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]

Nawaz Zarqa; Kakar Kaleem Ullah; Saand Mumtaz A; Shu Qing-Yao; Cyclic nucleotide-gated ion channel gene family in rice, identification, characterization and experimental analysis of expression response to plant hormones, biotic and abiotic stresses. BMC genomics 2014:15
PMID [25280591]


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