Rice gene details
Searching for LOC_Os03g27960 [sodium/calcium exchanger 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_Os03g27960.1 439 103 250 PF01699.16 Na_Ca_ex
2 LOC_Os03g27960.1 439 292 425 PF01699.16 Na_Ca_ex
3 LOC_Os03g27960.2 438 103 250 PF01699.16 Na_Ca_ex
4 LOC_Os03g27960.2 438 292 425 PF01699.16 Na_Ca_ex
  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
  3
N22 Root FC
  2
IR64 Flag-leaf FC
  -1
IR64InfloresenceFC
  2
IR64 Root FC
  -2

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0005215 transporter activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0006950 response to stress  
2 GO:0009651 response to salt stress  
3 GO:0006810 transport (RGAP)
4 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:0007048 sodium chloride regimen (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQF008 seed dormancy
2 AQF026 seed dormancy
3 AQF043 awn length
4 AQF060 anther length
5 CQAH11 seed dormancy
6 CQAH12 seed dormancy
7 AQDY056 panicle length
8 AQDY058 panicle length
9 AQGJ020 leaf nitrogen content
10 AQHE004 root length
11 DQC15 penetrated to total root ratio
12 DQC8 penetrated root number
13 AQDY054 panicle length
14 AQCQ011 grain number
15 AQCQ038 1000-seed weight
16 CQAL1 grain length
17 CQAL24 grain length
18 AQFE071 100-grain weight
19 AQFE072 100-grain weight
20 AQFE073 100-grain weight
21 CQE18 yield
22 AQDY051 culm length
23 AQED021 panicle length
24 AQED022 panicle length
25 AQBG008 white-backed planthopper resistance
26 CQAS27 plant height
27 AQFA007 grain length
28 AQFA014 grain length to width ratio
29 CQE17 seed dormancy
30 AQEJ061 leaf area
31 AQEJ063 leaf width
32 AQEJ065 leaf width
33 AQEJ071 leaf width
34 AQEJ073 leaf length to width ratio
35 CQE26 carbon content
36 CQE27 grain number
37 CQF5 soluble protein content
38 AQCK007 days to heading
39 CQE16 days to heading
40 AQAL004 deep root dry weight
41 AQAL010 deep root to shoot ratio
42 AQGC006 penetrated root number
43 AQGC012 penetrated root number
44 AQGC015 root penetration index
45 AQDL005 stomatal closure time
46 AQCU106 spikelet fertility
47 AQEO009 seed length
48 AQHP079 drought tolerance
49 AQHQ003 days to flower
50 CQAW9 root number
51 AQDV003 biomass yield
52 AQDV018 harvest index
53 AQDV043 plant height
54 AQEP003 seedling vigor
55 AQEP004 seedling vigor
56 AQFA006 cooked kernel elongation
57 DQE37 relative growth rate
58 CQE19 specific leaf area

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 (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 PO:0009005 root (+)
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]

Yamada Nana; Theerawitaya Cattarin; Cha-Um Suriyan; Kirdmanee Chalermpol; Takabe Teruhiro; Expression and functional analysis of putative vacuolar Ca(2+)-transporters (CAXs and ACAs) in roots of salt tolerant and sensitive rice cultivars. Protoplasma 2014:
PMID [24482191]


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