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

GSBRNA2T00098885001

Common Name

GSBRNA2T00098885001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 247aa MW: 27949.1 Da PI: 8.1813

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00098885001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.8	2e-05	80	99	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ GSBRNA2T00098885001 80 FSCPVCFKTFNRYNNMQMHM 99 89*****************9 PP
2	zf-C2H2	15.2	6.4e-05	164	186	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C +Cgk F + + ++H +++ GSBRNA2T00098885001 164 FMCRKCGKAFAVRGDWRTHEKNC 186 89*****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.65E-5	76	103	No hit	No description
SMART	SM00355	0.38	80	102	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.076	80	107	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	3.2E-6	80	99	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	82	102	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	9.42E-7	146	184	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.9E-6	160	184	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	49	164	184	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	8.808	164	184	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 247 aa Download sequence Send to blast
MASFLTLSSS SSSSRTTHHH ENMNNQKDLD NDYHHEGTGG GEDDDEDSVG GDGACRISRL 60 NKGQYWIPTP SQILIGPTQF SCPVCFKTFN RYNNMQMHMW GHGSEYRKGP ESLRGTQPTG 120 MLRLPCYCCA PGCRNNIDHP RAKPLKDFRT LQTHYKRKHG IKPFMCRKCG KAFAVRGDWR 180 THEKNCGKLW YCICGSDFKH KRSLKDHIKA FGNGHGAYGI DGFDDEDETA SEVEQLDNDH 240 ESRRSK*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269\|PubMed:17600712}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269\|PubMed:17600712, ECO:0000269\|PubMed:23515580, ECO:0000269\|PubMed:25039392}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00098885001

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	AF254447	0.0	AF254447.1 Arabidopsis thaliana WIP2 protein (WIP2) mRNA, complete cds.
GenBank	BT021089	0.0	BT021089.1 Arabidopsis thaliana At3g57670 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009104073.1	0.0	PREDICTED: zinc finger protein WIP2 isoform X2
Swissprot	Q9SVY1	1e-167	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	A0A3P6BK25	0.0	A0A3P6BK25_BRACM; Uncharacterized protein
TrEMBL	M4CGG2	0.0	M4CGG2_BRARP; Uncharacterized protein
STRING	Bra003295.1-P	0.0	(Brassica rapa)
STRING	Bo6g073120.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM239	28	237

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57670.1	1e-154	C2H2 family protein

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656]