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

Gorai.002G005800.1

Common Name

B456_002G005800, LOC105773035

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

MYB_related

Protein Properties

Length: 82aa MW: 9320.4 Da PI: 7.6776

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.002G005800.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	23.6	1.2e-07	9	54	3	46
SS-HHHHHHHHHHHHHTTTT...-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGgg...tWktIartmgkgRtlkqcksrwqk 46 +WT+ + + +a + + ++ +W +a+ +g g+t +++k ++ Gorai.002G005800.1 9 SWTAKQNKDFERALAVYDKDtpdRWYNVAKAVG-GKTVEEVKKHYEL 54 6******************************.*********76 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51293	10.667	5	60	IPR017884	SANT domain
SMART	SM00717	8.5E-6	6	58	IPR001005	SANT/Myb domain
Pfam	PF00249	1.3E-5	9	54	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	1.54E-12	9	64	IPR009057	Homeodomain-like
CDD	cd00167	1.88E-5	9	56	No hit	No description
Gene3D	G3DSA:1.10.10.60	9.7E-5	9	62	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: 82 aa Download sequence Send to blast
MSSNSMSASW TAKQNKDFER ALAVYDKDTP DRWYNVAKAV GGKTVEEVKK HYELLLEDVR 60 HIESGRVPFP DYWTVTGNRQ A*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2cjj_A	1e-34	2	78	3	79	RADIALIS
Search in ModeBase

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}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012450078.1	2e-55	PREDICTED: protein RADIALIS-like 2
Refseq	XP_016715622.1	2e-55	PREDICTED: protein RADIALIS-like 2
Swissprot	Q1A173	4e-35	RADL6_ARATH; Protein RADIALIS-like 6
TrEMBL	A0A0D2NG98	5e-54	A0A0D2NG98_GOSRA; Uncharacterized protein
TrEMBL	A0A1U8LM15	5e-54	A0A1U8LM15_GOSHI; protein RADIALIS-like 2
STRING	Gorai.002G005800.1	8e-55	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM221	28	198

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G75250.2	2e-37	RAD-like 6

Link Out ? help Back to Top
Phytozome	Gorai.002G005800.1
Entrez Gene	105773035

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886]