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

GSVIVT01031300001

Common Name

LOC104881371, VIT_14s0060g00610

Organism

Vitis vinifera

Taxonomic ID

29760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

C3H

Protein Properties

Length: 153aa MW: 16897.9 Da PI: 8.7151

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01031300001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	28.6	2.4e-09	53	79	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 y+ C++f rtG+C+yGd+Ck+ H++ GSVIVT01031300001 53 YGKGVCNRFVRTGFCQYGDSCKYFHPK 79 56668********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	2.6E-5	3	38	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	4.42E-18	4	61	No hit	No description
Pfam	PF06220	3.2E-10	5	38	IPR013085	Zinc finger, U1-C type
SMART	SM00356	6.7E-4	52	79	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.07	52	80	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-7	53	82	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-7	53	79	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.0E-7	57	82	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 153 aa Download sequence Send to blast
MPLGKYHCDY CDKQFQDTPS ARKRHLQGLQ HQRAKALWYD SFRDPNQIQA EGYGKGVCNR 60 FVRTGFCQYG DSCKYFHPKQ SLQNTNTQSI PVTGFPDNIQ SLSNPGNQLV GGGPLPGNVV 120 KDSMGNSWGN LPPSLKPPPE GGYPPLPFLD WG*

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM452437	3e-63	AM452437.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X139229.4, clone ENTAV 115.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010659728.1	1e-110	PREDICTED: zinc finger CCCH domain-containing protein 3 isoform X1
Swissprot	Q0JP11	3e-48	C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBL	D7UA82	1e-109	D7UA82_VITVI; Uncharacterized protein
STRING	VIT_14s0060g00610.t01	1e-109	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP8539	12	13

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G26749.1	8e-31	C3H family protein

Link Out ? help Back to Top
Phytozome	GSVIVT01031300001
Entrez Gene	104881371

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]