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_Os12g33950.1

Common Name

OsJ_36303

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

MYB_related

Protein Properties

Length: 110aa MW: 12128.3 Da PI: 10.6294

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os12g33950.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	30.8	6.8e-10	4	52	3	48
SS-HHHHHHHHHHHHHTTTT...-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 3 rWTteEdellvdavkqlGgg...tWktIartmgkgRtlkqcksrwqkyl 48 +WTt +l+ +a + + ++ +W +ar +g g+t++++k ++ k+l LOC_Os12g33950.1 4 SWTTKQNKLFERALATYDKDtpgRWQNVARAVGGGKTAEEVKRHYDKLL 52 7********************************************9875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00717	7.3E-8	1	54	IPR001005	SANT/Myb domain
PROSITE profile	PS51293	10.589	1	50	IPR017884	SANT domain
SuperFamily	SSF46689	3.59E-12	3	59	IPR009057	Homeodomain-like
CDD	cd00167	2.00E-5	4	52	No hit	No description
Pfam	PF00249	3.9E-7	4	52	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.4E-4	4	53	IPR009057	Homeodomain-like

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

Sequence ? help Back to Top
Protein Sequence Length: 110 aa Download sequence Send to blast
MSSSWTTKQN KLFERALATY DKDTPGRWQN VARAVGGGKT AEEVKRHYDK LLQDLHHIES 60 AGRQGSQYGG SSSSKSKGGS SSGEQRYRNR DWKQQPGLHS GAVKRASQY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2cjj_A	7e-23	4	89	10	89	RADIALIS
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	Q2QPM6

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in the micropylar endosperm surrounding globular-stage embryos but no expression was detected elsewhere, including floral tissues. {ECO:0000269\|PubMed:17672842}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os12g33950.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os12g33950

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AL731738	1e-141	AL731738.6 Oryza sativa chromosome 12, . BAC OSJNBa0005K20 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBank	AP012527	1e-141	AP012527.1 Oryza rufipogon mitochondrial DNA, complete genome, strain: RT98C.
GenBank	AP012528	1e-141	AP012528.1 Oryza rufipogon mitochondrial DNA, complete genome, strain: RT102C.
GenBank	AP014968	1e-141	AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBank	BX000456	1e-141	BX000456.3 Oryza sativa chromosome 12, . BAC OSJNBa0050D07 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBank	JF281154	1e-141	JF281154.1 Oryza sativa Indica Group strain WA-CMS mitochondrion, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015619271.1	4e-56	protein RADIALIS-like 3
Swissprot	Q1A173	6e-25	RADL6_ARATH; Protein RADIALIS-like 6
TrEMBL	Q2QPM6	2e-73	Q2QPM6_ORYSJ; Myb-related protein, putative
STRING	OS12T0522516-00	1e-55	(Oryza sativa)
STRING	ONIVA02G03520.1	2e-52	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP270	38	230
Representative plant	OGRP347	12	98

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G75250.1	4e-26	RAD-like 6

Link Out ? help Back to Top
Phytozome	LOC_Os12g33950.1

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]