PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

LOC_Os12g40630.1

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

bHLH

Protein Properties

Length: 250aa MW: 26995.4 Da PI: 4.7373

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os12g40630.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	37.6	4e-12	105	147	9	55
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++RR +iN+ + +L++l+P + +k ++ a++L k+++Y+ksLq LOC_Os12g40630.1 105 MQKRRCKINENLKTLQQLVPVC----DKSNNQASTLDKTIRYMKSLQ 147 69*****************9....788***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	11.82	96	146	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.1E-5	102	152	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.2E-12	106	154	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	3.14E-12	106	156	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	8.17E-10	106	148	No hit	No description
Pfam	PF00010	3.1E-9	106	147	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 250 aa Download sequence Send to blast
MEMTSYNDVD AGDMFAAADY YSAGAGGDLF DMVWPGRRRR EEDNTSGCLP LSPPPPPELA 60 VDDQLLAGGD GGGGKPVAVA VAEDDDSGER WTEDQVPTDE GICVMQKRRC KINENLKTLQ 120 QLVPVCDKSN NQASTLDKTI RYMKSLQQHA QAMSVGCSMK TAEAAGVTCP FLPPPPSSAL 180 LVIVEEGPTR PWDATARSTS AAATSFDHHH HGALIEKLLQ VVQPYMLSLK TSVRENNAMV 240 MQKPNFYHS*

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	Q2QMM8

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os12g40630.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os12g40630

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AL731743	1e-135	AL731743.2 Oryza sativa chromosome 12, . BAC OSJNBa0001B02 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBank	AP014968	1e-135	AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBank	CP012620	1e-135	CP012620.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 12 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025806979.1	3e-19	putative transcription factor bHLH056
TrEMBL	Q2QMM8	0.0	Q2QMM8_ORYSJ; Helix-loop-helix DNA-binding domain containing protein
STRING	ORUFI12G19860.1	1e-139	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP16434	10	12

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G20180.1	2e-12	phytochrome interacting factor 3-like 5

Link Out ? help Back to Top
Phytozome	LOC_Os12g40630.1

Publications ? help Back to Top
Rice Chromosomes 11 and 12 Sequencing Consortia The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biol., 2005. 3: p. 20 [PMID:16188032]