PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

C2H2

Protein Properties

Length: 302aa MW: 34346.8 Da PI: 6.9384

Description

C2H2-like zinc finger protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G13290.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.7e-05	101	120	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++C+ C+k+F+r n++ H+ AT1G13290.1 101 FSCSVCNKTFNRFNNMQMHM 120 89*****************9 PP
2	zf-C2H2	11	0.0014	186	209	1	23
EEET.TTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCp.dCgksFsrksnLkrHirtH 23 ++C +C k+F + + ++H +++ AT1G13290.1 186 FRCRkKCEKTFAVRGDWRTHEKNC 209 89******************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.54E-5	97	122	No hit	No description
Gene3D	G3DSA:3.30.160.60	9.6E-6	101	120	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.263	101	128	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	103	123	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.3E-4	172	207	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010087	Biological Process	phloem or xylem histogenesis
GO:0010305	Biological Process	leaf vascular tissue pattern formation
GO:0010588	Biological Process	cotyledon vascular tissue pattern formation
GO:0048364	Biological Process	root development
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046872	Molecular Function	metal ion binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000037	anatomy	shoot apex
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009052	anatomy	flower pedicel
PO:0025022	anatomy	collective leaf structure
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0004507	developmental stage	plant embryo bilateral stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 302 aa Download sequence Send to blast
MYNNNQYSFS GDEDSVVLSL GPPGQQYPSH NKPTSTKPSS DHEFNHPLTN PNGVTVALHI 60 GPPSSDKETL SGGNNQEGLT ARQGQYWIPS LSQILVGPTQ FSCSVCNKTF NRFNNMQMHM 120 WGHGSQYRKG PESLRGTKSS SSILRLPCYC CAEGCKNNID HPRSKPLKDF RTLQTHYKRK 180 HGAKPFRCRK KCEKTFAVRG DWRTHEKNCG KLWFCVCGSD FKHKRSLKDH VRAFGDGHAA 240 HTVSDRVVGI GDADEDDEEE EEEEEDDVEE EDAHEENVRG EKNYGIRYDH FRRYGQISDD 300 NY

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	30683209	0.0
Genevisible	257515_at	0.0
Expression Atlas	AT1G13290	-
AtGenExpress	AT1G13290	-
ATTED-II	AT1G13290	-

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a putative zinc finger protein (C2H2 family, type IIIA, subclass A1d) that has a WIP domain. Seedlings with mutations in DOT5 have a misaligned venation defect in their leaves and cotyledons. Additional developmental abnormalities, such as elongated petioles and aberrant phyllotaxy suggest that DOT5 is required for normal shoot and root development.
UniProt	Probable transcriptional regulator (Probable). Involved in leaf vasculature patterning (PubMed:18643975). {ECO:0000269\|PubMed:18643975, ECO:0000305\|PubMed:20541552}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G13290.1

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

Phenotype -- Disruption Phenotype ? help Back to Top
Source	Description
UniProt	DISRUPTION PHENOTYPE: Defects in venation pattern in leaves and cotyledons, altered phyllotaxy of vegetative leaves, short roots, delay in leaf initiation and reduced apical dominance. {ECO:0000269\|PubMed:18643975}.

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G13290

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ311809	0.0	AJ311809.1 Arabidopsis thaliana mRNA for WIP6 protein (At1g13290 gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_172787.1	0.0	C2H2-like zinc finger protein
Swissprot	Q9FX68	0.0	ZWIP6_ARATH; Zinc finger protein WIP6
TrEMBL	A0A178WLC9	0.0	A0A178WLC9_ARATH; WIP6
STRING	AT1G13290.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM239	28	237
Representative plant	OGRP410	15	97

Link Out ? help Back to Top
Phytozome	AT1G13290.1
Entrez Gene	837889
iHOP	AT1G13290
wikigenes	AT1G13290

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Sagasser M,Lu GH,Hahlbrock K,Weisshaar B A. thaliana TRANSPARENT TESTA 1 is involved in seed coat development and defines the WIP subfamily of plant zinc finger proteins. Genes Dev., 2002. 16(1): p. 138-49 [PMID:11782451] Englbrecht CC,Schoof H,B Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome. BMC Genomics, 2004. 5(1): p. 39 [PMID:15236668] Petricka JJ,Clay NK,Nelson TM Vein patterning screens and the defectively organized tributaries mutants in Arabidopsis thaliana. Plant J., 2008. 56(2): p. 251-63 [PMID:18643975] Appelhagen I, et al. Weird fingers: functional analysis of WIP domain proteins. FEBS Lett., 2010. 584(14): p. 3116-22 [PMID:20541552] Terryn N, et al. Sequence analysis of a 40-kb Arabidopsis thaliana genomic region located at the top of chromosome 1. Gene, 1998. 215(1): p. 11-7 [PMID:9666060]