Rice gene details
Searching for LOC_Os09g38580 [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_Os09g38580.1 714 128 398 PF00520.23 Ion_trans
2 LOC_Os09g38580.1 714 499 599 PF00027.21 cNMP_binding
3 LOC_Os09g38580.3 491 128 398 PF00520.23 Ion_trans
4 LOC_Os09g38580.4 365 128 356 PF00520.23 Ion_trans
5 LOC_Os09g38580.5 359 128 314 PF00520.23 Ion_trans
  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
  1
IR64InfloresenceFC
  -1
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:0009409 response to cold  
2 GO:0009617 response to bacterium  
3 GO:0009723 response to ethylene stimulus  
4 GO:0009733 response to auxin stimulus  
5 GO:0009735 response to cytokinin stimulus  
6 GO:0009737 response to abscisic acid stimulus  
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 CQE74 shoot elongation rate
2 AQF004 grain shattering
3 AQF040 seed dormancy
4 AQF071 anther length
5 AQF102 KClO3 resistance
6 CQF13 rubisco content
7 AQGS010 panicle length
8 AQGS028 seed weight
9 AQGS031 grain yield per plant
10 AQEE008 colored grain percentage
11 AQGP032 1000-seed weight
12 AQHF023 leaf senescence
13 AQHF042 leaf senescence

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