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

AT5G07500.1

Common Name

AtTZF6, PEI1, T2I1.210, TZF6

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 245aa MW: 28175.4 Da PI: 7.1842

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT5G07500.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.2	1.2e-07	98	117	6	26
-SGGGGTS--TTTTT-SS-SS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHg 26 C+ f+ G C++Gd+C FaHg AT5G07500.1 98 CPAFRN-GACHRGDSCEFAHG 117 666666.*************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	5.0E-4	92	118	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.427	92	119	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.8E-6	97	117	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.0E-5	98	120	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	22	127	150	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009793	Biological Process	embryo development ending in seed dormancy
GO:0030154	Biological Process	cell differentiation
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 245 aa Download sequence Send to blast
MLKSASPMAF YDIGEQQYST FGYILSKPGN AGAYEIDPSI PNIDDAIYGS DEFRMYAYKI 60 KRCPRTRSHD WTECPYAHRG EKATRRDPRR YTYCAVACPA FRNGACHRGD SCEFAHGVFE 120 YWLHPARYRT RACNAGNLCQ RKVCFFAHAP EQLRQSEGKH RCRYAYRPVR ARGGGNGDGV 180 TMRMDDEGYD TSRSPVRSGK DDLDSNEEKV LLKCWSRMSI VDDHYEPSDL DLDLSHFDWI 240 SELVD

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.5234	0.0	seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	2961541	0.0
Genevisible	250583_at	0.0
Expression Atlas	AT5G07500	-
AtGenExpress	AT5G07500	-
ATTED-II	AT5G07500	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Specifically expressed in embryo (at protein level). {ECO:0000269\|PubMed:9501112}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes an embryo-specific zinc finger transcription factor required for heart-stage embryo formation.
UniProt	Embryo-specific transcription factor required at the globular to heart stage transition in embryo development. {ECO:0000269\|PubMed:9501112}.

Function -- GeneRIF ? help Back to Top
AtTZF4, 5 and 6 affect seed germination by controlling genes critical for abscisic acid (ABA) and gibberellic acid (GA) response. [PMID: 23421766]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT5G07500.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT5G07500

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF050463	0.0	AF050463.1 Arabidopsis thaliana zinc finger transcription factor (PEI1) mRNA, complete cds.
GenBank	AL163912	0.0	AL163912.1 Arabidopsis thaliana DNA chromosome 5, BAC clone T2I1 (ESSA project).
GenBank	CP002688	0.0	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_196367.1	0.0	Zinc finger C-x8-C-x5-C-x3-H type family protein
Swissprot	O65036	0.0	C3H54_ARATH; Zinc finger CCCH domain-containing protein 54
TrEMBL	Q6V5H6	1e-177	Q6V5H6_ARAAE; Cu2+ plastocyanin-like
STRING	AT5G07500.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11527	21	26
Representative plant	OGRP8868	4	4

Link Out ? help Back to Top
Phytozome	AT5G07500.1
Entrez Gene	830642
iHOP	AT5G07500
wikigenes	AT5G07500

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] Ruuska SA,Girke T,Benning C,Ohlrogge JB Contrapuntal networks of gene expression during Arabidopsis seed filling. Plant Cell, 2002. 14(6): p. 1191-206 [PMID:12084821] Schein M,Yang Z,Mitchell-Olds T,Schmid KJ Rapid evolution of a pollen-specific oleosin-like gene family from Arabidopsis thaliana and closely related species. Mol. Biol. Evol., 2004. 21(4): p. 659-69 [PMID:14739246] Fiebig A,Kimport R,Preuss D Comparisons of pollen coat genes across Brassicaceae species reveal rapid evolution by repeat expansion and diversification. Proc. Natl. Acad. Sci. U.S.A., 2004. 101(9): p. 3286-91 [PMID:14970339] Casson S,Spencer M,Walker K,Lindsey K Laser capture microdissection for the analysis of gene expression during embryogenesis of Arabidopsis. Plant J., 2005. 42(1): p. 111-23 [PMID:15773857] Underwood BA,Vanderhaeghen R,Whitford R,Town CD,Hilson P Simultaneous high-throughput recombinational cloning of open reading frames in closed and open configurations. Plant Biotechnol. J., 2006. 4(3): p. 317-24 [PMID:17147637] Li Z, et al. A Cre/loxP-mediated self-activating gene excision system to produce marker gene free transgenic soybean plants. Plant Mol. Biol., 2007. 65(3): p. 329-41 [PMID:17712602] Wang D, et al. Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice. BMC Genomics, 2008. 9: p. 44 [PMID:18221561] Kim DH, et al. SOMNUS, a CCCH-type zinc finger protein in Arabidopsis, negatively regulates light-dependent seed germination downstream of PIL5. Plant Cell, 2008. 20(5): p. 1260-77 [PMID:18487351] Pomeranz M,Lin PC,Finer J,Jang JC AtTZF gene family localizes to cytoplasmic foci. Plant Signal Behav, 2010. 5(2): p. 190-2 [PMID:20173417] Bogamuwa S,Jang JC The Arabidopsis tandem CCCH zinc finger proteins AtTZF4, 5 and 6 are involved in light-, abscisic acid- and gibberellic acid-mediated regulation of seed germination. Plant Cell Environ., 2013. 36(8): p. 1507-19 [PMID:23421766] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Bogamuwa S,Jang JC Plant Tandem CCCH Zinc Finger Proteins Interact with ABA, Drought, and Stress Response Regulators in Processing-Bodies and Stress Granules. PLoS ONE, 2016. 11(3): p. e0151574 [PMID:26978070] Li Z,Thomas TL PEI1, an embryo-specific zinc finger protein gene required for heart-stage embryo formation in Arabidopsis. Plant Cell, 1998. 10(3): p. 383-98 [PMID:9501112]