Rice gene details
Searching for LOC_Os05g12240 [chalcone synthase, putative ]

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_Os05g12240.1 393 8 231 PF00195.11 Chal_sti_synt_N
2 LOC_Os05g12240.1 393 241 391 PF02797.7 Chal_sti_synt_C
  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:0016740 transferase activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0009416 response to light stimulus  
2 GO:0009744 response to sucrose stimulus  
3 GO:0009749 response to glucose stimulus  
4 GO:0006950 response to stress (RGAP)
5 GO:0009719 response to endogenous stimulus (RGAP)
6 GO:0009058 biosynthetic process (RGAP)
7 GO:0009987 cellular process (RGAP)
8 GO:0019748 secondary metabolic process (RGAP)
9 GO:0009628 response to abiotic stimulus (RGAP)
10 GO:0006810 transport (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0005634 nucleus (RGAP)
2 GO:0005783 endoplasmic reticulum (RGAP)
3 GO:0016020 membrane (RGAP)
4 GO:0005773 vacuole (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007196 light regimen (+)
2 MCE:1000037 sucrose (+)
3 MCE:1000241 D-glucose (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 CQAX34 plant height
2 AQBK013 days to heading
3 CQAS60 seed number
4 CQAS61 seed set percent
5 CQAS64 seed number
6 CQAS62 1000-seed weight
7 DQC9 penetrated root number
8 CQAS55 days to maturity
9 CQAS58 spikelet number
10 AQFP011 culm length
11 AQFP033 culm length
12 AQGS018 grain number
13 AQGS013 spikelet number
14 AQGS022 grain number
15 AQCV015 grain width
16 AQEO006 spikelet fertility
17 AQDQ044 seed weight
18 AQDQ045 seed weight
19 AQDQ046 plant height
20 AQDR006 1000-seed weight
21 CQAO12 1000-seed weight
22 CQAV8 osmotic adjustment capacity
23 AQEN004 blast disease resistance
24 CQAW17 root number
25 AQFR023 seedling vigor
26 AQFR037 seedling vigor
27 AQFR048 seedling vigor
28 AQFP012 culm length
29 AQFP032 culm length
30 AQCU153 spikelet number
31 AQCU186 days to heading
32 AQFW122 spikelet fertility
33 AQC016 penetrated to total root ratio

Plant developmental stage / tissue details
Plant development stage
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000204 5 days post-anthesis stage (+)
2 MCP:1000288 7 days post-anthesis stage (+)
3 MCP:1000489 3 days post-anthesis stage (+)
4 MCP:1000518 seedling development stage (+)
5 MCP:1000533 early tillering stage (+)
6 MCP:1000534 late tillering stage (+)
Plant tissue/organ
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
1 MCP:1000160 middle part of root (+)
2 PO:0000003 whole plant (+)
3 PO:0000025 root tip (+)
4 PO:0009001 fruit (+)
5 PO:0009089 endosperm (+)
6 PO:0020103 flag leaf (+)
7 PO:0020104 leaf sheath (+)
8 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]

Chen Xiaoqiong; Itani Tomio; Wu Xianjun; Chikawa Yuuki; Irifune Kohei; Physiological factors affecting transcription of genes involved in the flavonoid biosynthetic pathway in different rice varieties. Plant signaling & behavior 2014:8
PMID [24389954]

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