Rice gene details
Searching for LOC_Os05g42250 [cyclic nucleotide-gated ion channel 2, 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_Os05g42250.1 692 117 412 PF00520.23 Ion_trans
2 LOC_Os05g42250.1 692 513 611 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
N22 Root FC
IR64 Flag-leaf FC
IR64 Root FC

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0000166 nucleotide binding (RGAP)
2 GO:0005515 protein binding (RGAP)
3 GO:0005215 transporter activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009409 response to cold  
2 GO:0009617 response to bacterium  
3 GO:0009733 response to auxin stimulus  
4 GO:0009737 response to abscisic acid stimulus  
5 GO:0006950 response to stress (RGAP)
6 GO:0008219 cell death (RGAP)
7 GO:0006810 transport (RGAP)
8 GO:0009987 cellular process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0016020 membrane (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 AQBK013 days to heading
2 CQAS62 1000-seed weight
3 AQFP018 culm strength
4 AQBK016 days to heading
5 AQEP016 seedling vigor
6 AQEE015 head rice
7 AQEE019 cracked grain percentage
8 AQE042 grain yield per panicle
9 AQCO006 spikelet fertility
10 AQCP006 spikelet fertility
11 CQX28 internode length
12 AQGI228 total biomass yield
13 AQHR014 tiller number
14 AQAD001 sheath blight disease resistance
15 AQAG034 1000-seed weight
16 AQAI021 large vascular bundle number
17 AQCQ022 grain yield per plant
18 CQAJ20 grain number
19 AQBK015 days to heading
20 AQBK018 days to heading
21 CQAA19 relative phosphorus distribution between shoot and root
22 AQDZ002 lodging incidence
23 AQDZ013 lodging incidence
24 CQAS53 plant height
25 AQCF007 1000-seed weight
26 AQCF018 1000-seed weight
27 AQCF032 filled grain number
28 AQCF033 spikelet number
29 AQCF034 1000-seed weight
30 AQBK017 days to heading
31 CQAA18 relative phosphorus distribution between shoot and root
32 AQFE063 seed set percent
33 AQX002 primary branch
34 CQAE10 plant height
35 AQAP043 brown planthopper resistance
36 AQCE028 primary branch length
37 AQCU197 plant height
38 AQCU212 leaf length
39 AQFW218 leaf width
40 AQFU013 milled rice ratio
41 CQAG23 setback
42 AQBV012 leaf angle
43 AQBV013 tiller angle
44 AQBV014 leaf angle
45 AQHF007 leaf width
46 AQBC050 panicle tiller ratio
47 AQBC051 panicle tiller ratio
48 AQBC052 panicle tiller ratio
49 AQEA231 days to heading
50 AQEA232 days to heading
51 AQEA233 days to heading
52 AQEA234 days to heading
53 AQEA235 days to heading
54 AQEA236 days to heading
55 AQEA237 days to heading
56 AQEP005 seedling vigor
57 AQDX008 osmotic adjustment capacity
58 AQAX001 carbohydrate content
59 AQAX005 carbohydrate content
60 AQAX006 carbohydrate content
61 AQAX013 carbohydrate content
62 AQAX014 carbohydrate content

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 (+)
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