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_Os11g41640.1

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: 247aa MW: 27597.9 Da PI: 4.9932

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os11g41640.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	34.5	3.6e-11	171	211	10	55
HHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 10 rrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +rRR+riN+++ L++l+P+ +K++ +++Le+Av+Y+k Lq LOC_Os11g41640.1 171 KRRRERINERLRILQQLVPNG-----TKVDISTMLEEAVQYVKFLQ 211 9****************97.....8****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	1.4E-13	161	221	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.212	161	210	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	3.93E-14	163	222	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.3E-11	167	216	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.52E-12	170	215	No hit	No description
Pfam	PF00010	1.9E-8	171	211	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: 247 aa Download sequence Send to blast
MDARCANIWS SADARSEESE MIDQLKSMFW SSTDAEINFY SPDSSVNSCV TTSTMPSSLF 60 LPLMDDEGFG TVQLMHQVIT GNKRMFPMDE HFEQQQKKPK KKTRTSRSVS SSSTITDYET 120 SSELVNPSCS SGSSVGEDSI AATDGSVVLK QSDNSRGHKQ CSKDTQSLYA KRRRERINER 180 LRILQQLVPN GTKVDISTML EEAVQYVKFL QLQIKLLSSD DTWMFAPLAY NGMNMDLGHT 240 LAENQE*

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	Q2R0R9

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Roots. {ECO:0000269\|PubMed:12679534}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os11g41640.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By jasmonic acid (JA) treatment. {ECO:0000269\|PubMed:12679534}.

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os11g41640

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC118346	1e-122	AC118346.2 Oryza sativa (japonica cultivar-group) chromosome 11 BAC clone OSJNBa0039F06, complete sequence.
GenBank	AP014967	1e-122	AP014967.1 Oryza sativa Japonica Group DNA, chromosome 11, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015697725.1	1e-123	PREDICTED: transcription factor bHLH139-like
Swissprot	Q84WK0	3e-42	BH085_ARATH; Transcription factor bHLH85
TrEMBL	Q2R0R9	0.0	Q2R0R9_ORYSJ; Helix-loop-helix DNA-binding domain containing protein
STRING	OGLUM11G20000.1	1e-160	(Oryza glumipatula)
STRING	ORUFI11G22390.1	1e-160	(Oryza rufipogon)
STRING	ONIVA11G20620.1	1e-160	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14002	25	28
Representative plant	OGRP1048	14	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27740.1	7e-32	root hair defective 6-like 4

Link Out ? help Back to Top
Phytozome	LOC_Os11g41640.1

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] Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Rymen B, et al. ABA Suppresses Root Hair Growth via the OBP4 Transcriptional Regulator. Plant Physiol., 2017. 173(3): p. 1750-1762 [PMID:28167701] Han H, et al. Altered expression of the TaRSL2 gene contributed to variation in root hair length during allopolyploid wheat evolution. Planta, 2017. 246(5): p. 1019-1028 [PMID:28770336]