Rice gene details
Searching for LOC_Os01g54550 [HSF-type DNA-binding domain containing protein, 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_Os01g54550.1 441 11 176 PF00447.9 HSF_DNA-bind
  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
  2
N22 Root FC
  1
IR64 Flag-leaf FC
  2
IR64InfloresenceFC
  2
IR64 Root FC
  -1

Functional details
Molecular Function
S. No. GO Id GO Description
1 GO:0003677 DNA binding (RGAP)
2 GO:0003700 sequence-specific DNA binding transcription factor activity (RGAP)
Biological process
S. No. GO Id GO Description
1 GO:0006979 response to oxidative stress  
2 GO:0009408 response to heat  
3 GO:0009409 response to cold  
4 GO:0008150 biological_process (RGAP)
5 GO:0009058 biosynthetic process (RGAP)
6 GO:0006139 nucleobase, nucleoside, nucleotide and nucleic acid metabolic process (RGAP)
Cellular component
S. No. GO Id GO Description
1 GO:0005634 nucleus (RGAP)

Environment details
S. No. EO Id EO Description Presence(+) or absence(-) of gene expression /activity
1 EO:0007173 warm/hot temperature regimen (+)
2 EO:0007223 cadmium chloride (+)
3 EO:0007332 cold air temperature regimen (+)
4 EO:0007338 cold water temperature regimen (+)
5 EO:0007368 warm/hot water temperature regimen (+)
6 EO:0007415 hydrogen peroxide (+)

Metabolic Pathway details
Not found

QTL details
S. No. QTL Id QTL Associated Trait
1 AQF001 grain shattering
2 AQDY026 culm length
3 AQDY024 culm length
4 AQDY025 culm length
5 AQDY023 culm length
6 AQDY022 culm length
7 AQDY021 culm length
8 AQBV009 leaf angle
9 CQQ24 root thickness
10 CQQ1 root weight
11 AQCU132 leaf length
12 AQAQ008 blast disease resistance
13 AQGA029 gelatinization temperature
14 CQAR4 seed number
15 CQAR2 spikelet number
16 CQAR3 spikelet density
17 CQAR1 plant height
18 AQHP001 root thickness
19 AQBM009 green plantlet yield frequency
20 AQGB107 chalkiness of endosperm
21 AQGB075 chalkiness of endosperm
22 AQGB074 chalkiness of endosperm
23 AQGB073 chalkiness of endosperm
24 AQGB072 chalkiness of endosperm
25 CQX7 culm length
26 AQDQ005 spikelet fertility
27 AQDQ006 seed weight
28 AQFQ006 pre-flowering floret abortion
29 CQAR6 spikelet density
30 CQAR5 spikelet number
31 AQHH013 plant height
32 AQHH007 plant height
33 AQHG001 zinc sensitivity
34 AQED035 seed set percent
35 AQCW004 chlorophyll content
36 CQAS8 seed number
37 CQAS12 seed number
38 CQAS11 spikelet number
39 CQAS10 1000-seed weight
40 CQN1 nadh-dependent glutamate synthase content
41 CQN4 soluble protein content
42 AQCS004 ultraviolet-b resistance
43 AQED013 plant height
44 AQED012 plant height
45 CQAE5 plant height
46 CQAE24 grain yield per plant
47 CQAE20 1000-grain weight
48 CQAE19 1000-grain weight
49 CQAE15 grain number
50 AQE068 plant height
51 AQFP016 culm strength
52 AQBK040 seed number
53 CQC1 plant height
54 AQBK003 plant height
55 AQBK008 days to heading
56 AQBK044 seed set percent
57 AQCR001 grain yield
58 AQCS001 ultraviolet-b resistance
59 CQG1 adaxial stomatal frequency
60 AQEN001 blast disease resistance
61 CQX6 culm length
62 CQX21 internode length
63 CQN51 spikelet number
64 CQN5 soluble protein content
65 CQN43 panicle weight
66 CQN26 leaf senescence
67 CQN49 spikelet number
68 CQN3 soluble protein content
69 CQE3 plant height
70 CQE2 plant height
71 CQE6 specific leaf area
72 CQF2 soluble protein content
73 AQCW010 H2O2 content
74 AQCW002 chlorophyll content

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:0000003 whole plant (+)
2 PO:0005052 plant callus (-)
3 PO:0006340 adult leaf (-)
4 PO:0008037 seedling (+)
5 PO:0009005 root (-)
6 PO:0009006 shoot system (+)
7 PO:0009010 seed (-)
8 PO:0009046 flower (+)
9 PO:0009049 inflorescence (+)
Others
S. No. PO Id PO Description Presence(+) or absence(-) of gene expression /activity
Not found

Trait details
S. No. TO Id TO Description Presence(+) or absence(-) of gene expression /activity
1 TO:0000207 plant height (+)
2 TO:0000442 plant fresh weight (+)

Physical interaction details
Interaction type: protein-protein
Not found
Interaction type: protein-DNA
Not found
Related publications [Sorted by year]

1  Mittal Dheeraj; Madhyastha Dinesh A; Grover Anil; Gene expression analysis in response to low and high temperature and oxidative stresses in rice: Combination of stresses evokes different transcriptional changes as against stresses applied individually. Plant Science 2012:197
PMID [23116677]


2  Mittal Dheeraj; Chakrabarti Sveta; Sarkar Anshuk; Singh Amanjot; Grover Anil; Heat shock factor gene family in rice: genomic organization and transcript expression profiling in response to high temperature, low temperature and oxidative stresses. Plant Physiology and Biochemistry 2009:47
PMID [19539489]


3  Shim Donghwan; Hwang Jae-Ung; Lee Joohyun; Lee Sichul; Choi Yunjung; An Gynheung; Martinoia Enrico; Lee Youngsook; Orthologs of the class A4 heat shock transcription factor HsfA4a confer cadmium tolerance in wheat and rice. The Plant cell 2009:21
PMID [20028842]


4  Wang Chuang; Zhang Qian; Shou Hui-xia; Identification and expression analysis of OsHsfs in rice. Journal of Zhejiang University. Science. B 2009:10
PMID [19353748]


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