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.012G009900.1

Common Name

B456_012G009900, LOC105780596

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

C3H

Protein Properties

Length: 397aa MW: 42776.9 Da PI: 8.0583

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.012G009900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.2	9.8e-12	4	27	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 k e Cr+f+r G C+yG+rCkF H+ Gorai.012G009900.1 4 KKEACRNFQR-GSCQYGERCKFLHV 27 889*****.***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.6E-6	2	28	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-5	3	29	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.779	3	29	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-9	4	27	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.0E-7	4	26	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005635	Cellular Component	nuclear envelope
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 397 aa Download sequence Send to blast
MHNKKEACRN FQRGSCQYGE RCKFLHVIQQ QPKSNAFGFG TQAISHQQQK PNPFGFGVQN 60 NAQSKGANDF GNKQSQFKNT WTRSSASSGA PSLRQPDNQP QATNHRCNDP ESCKRIIAED 120 FEHERPLWKL TCYSHWKNSP CDIVGDVSYE ELRAAAYDDA KRGLSLQSII ERERNLLNSK 180 LVEFENFLRN PYRGPAGSAA AQQIPFPGAT TIVLSPTTQN TVAPQSNVPP SVSSFSQLGA 240 SLNTGFSPGP SVQSNNASGQ PTSFSNSAQS SNVFSANNVP SANAFSFGNQ QPNQSVAASF 300 PTNMANFSNS SAINPAINQF SAAAVSTQNF SSSSIQSPAF LNVSLSNSEA VGREATNVQL 360 GNNLPTTVAS GDSNIWLKEK WTPGEIPEEA PPDAYV*

Sequence ? help Back to Top

Protein Sequence Length: 397 aa Download sequence Send to blast

MHNKKEACRN FQRGSCQYGE RCKFLHVIQQ QPKSNAFGFG TQAISHQQQK PNPFGFGVQN  60
NAQSKGANDF GNKQSQFKNT WTRSSASSGA PSLRQPDNQP QATNHRCNDP ESCKRIIAED  120
FEHERPLWKL TCYSHWKNSP CDIVGDVSYE ELRAAAYDDA KRGLSLQSII ERERNLLNSK  180
LVEFENFLRN PYRGPAGSAA AQQIPFPGAT TIVLSPTTQN TVAPQSNVPP SVSSFSQLGA  240
SLNTGFSPGP SVQSNNASGQ PTSFSNSAQS SNVFSANNVP SANAFSFGNQ QPNQSVAASF  300
PTNMANFSNS SAINPAINQF SAAAVSTQNF SSSSIQSPAF LNVSLSNSEA VGREATNVQL  360
GNNLPTTVAS GDSNIWLKEK WTPGEIPEEA PPDAYV*

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_012460466.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 16 isoform X1
TrEMBL	A0A0D2V076	0.0	A0A0D2V076_GOSRA; Uncharacterized protein
STRING	Gorai.012G009900.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10724	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G75340.1	1e-92	C3H family protein

Link Out ? help Back to Top
Phytozome	Gorai.012G009900.1
Entrez Gene	105780596

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]