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

GSBRNA2T00095272001

Common Name

GSBRNA2T00095272001

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

C3H

Protein Properties

Length: 704aa MW: 77395.7 Da PI: 7.5643

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00095272001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.6	3.8e-07	153	173	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ffa+ G C G++C+F H+ GSBRNA2T00095272001 153 PCKFFAQ-GRCTKGNSCRFLHV 173 7****.***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.0043	148	174	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.76	148	175	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-6	148	172	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.9E-5	153	174	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-4	153	173	IPR000571	Zinc finger, CCCH-type

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

Sequence ? help Back to Top
Protein Sequence Length: 704 aa Download sequence Send to blast
MSDSDMDIDD DEVQVNVQHT IAGESRLLAR PIEASNSQND VKKHLDEQLK IINGNLQPNL 60 SGNSGNNLFL EGEKGIILPS LRLPAPGQSY PLVNGPEQSK IINGYVQPNL SGSSGKKLML 120 EGEKDTVLSR DLVLRFLSLP PANGPEQKRP AYPCKFFAQG RCTKGNSCRF LHVNENMNRT 180 SQQQVVNNMA GTSGIQSIEE RRPLESKEGI RFPMLSTNGV TSLVNPPAGQ RVFPFTNEMR 240 FMPPLENMGR GSLQKCGAVF TENRPVFGNS TSSFPLRSSF VQEYGSFITS NRQTDMGSSG 300 PAWTGSVFSS APLNQYASPF GNFENRNDIN GSEPLPMEQA LSVPSVQDAE VDTTSDTKEV 360 SSNDWEPSEP FRPSFTIPPY ILPSSDALYD PFTDIENPED RSPKAQSSTK GKDAQKKSGQ 420 QKDGDSASND KNSSCSQSQF QETVVRKNLE AHGVVEGVAT SVVDQNDASA TTPSKEISSS 480 AAVENRVVLK RSKPAGHESW HRSDGSSHQK KLKTDDMDGE VRSDAGTKVM RQFRTAVVET 540 IKDMLKPLWR EGRLSKDVHN MIVKRATEKI VSAAVQLHQV PTNSESVEKY LSMSSTRIVK 600 LVEGYVEKYG KPQSKPSGLA PIFLHLHFYP FTNNGRRWNW SSVEEFYVCL VFASKAGESG 660 KRKKQNNVEG TLSIILTILI TNCCFSFSIH GMSQVGVLPP NRT*

Sequence ? help Back to Top

Protein Sequence Length: 704 aa Download sequence Send to blast

MSDSDMDIDD DEVQVNVQHT IAGESRLLAR PIEASNSQND VKKHLDEQLK IINGNLQPNL  60
SGNSGNNLFL EGEKGIILPS LRLPAPGQSY PLVNGPEQSK IINGYVQPNL SGSSGKKLML  120
EGEKDTVLSR DLVLRFLSLP PANGPEQKRP AYPCKFFAQG RCTKGNSCRF LHVNENMNRT  180
SQQQVVNNMA GTSGIQSIEE RRPLESKEGI RFPMLSTNGV TSLVNPPAGQ RVFPFTNEMR  240
FMPPLENMGR GSLQKCGAVF TENRPVFGNS TSSFPLRSSF VQEYGSFITS NRQTDMGSSG  300
PAWTGSVFSS APLNQYASPF GNFENRNDIN GSEPLPMEQA LSVPSVQDAE VDTTSDTKEV  360
SSNDWEPSEP FRPSFTIPPY ILPSSDALYD PFTDIENPED RSPKAQSSTK GKDAQKKSGQ  420
QKDGDSASND KNSSCSQSQF QETVVRKNLE AHGVVEGVAT SVVDQNDASA TTPSKEISSS  480
AAVENRVVLK RSKPAGHESW HRSDGSSHQK KLKTDDMDGE VRSDAGTKVM RQFRTAVVET  540
IKDMLKPLWR EGRLSKDVHN MIVKRATEKI VSAAVQLHQV PTNSESVEKY LSMSSTRIVK  600
LVEGYVEKYG KPQSKPSGLA PIFLHLHFYP FTNNGRRWNW SSVEEFYVCL VFASKAGESG  660
KRKKQNNVEG TLSIILTILI TNCCFSFSIH GMSQVGVLPP NRT*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in root and shoot apices and vasculature. {ECO:0000269\|PubMed:16291783}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator involved in the FRIGIDA-mediated vernalization pathway, but not in the autonomous flowering pathway. Acts cooperatively with FRI (FRIGIDA) or FRL1 (FRIGIDA-LIKE 1) to promote FLC (FLOWERING LOCUS C) expression. Required for the stabilization of the FRI-C complex. {ECO:0000269\|PubMed:16291783, ECO:0000269\|PubMed:21282526}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00095272001

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_013642153.1	0.0	protein FRIGIDA-ESSENTIAL 1-like
Swissprot	Q84VG7	0.0	FES1_ARATH; Protein FRIGIDA-ESSENTIAL 1
TrEMBL	A0A078FW99	0.0	A0A078FW99_BRANA; BnaA05g09820D protein
STRING	Bo4g042370.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13468	15	21

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	0.0	C3H family protein

Publications ? help Back to Top
Ding L,Kim SY,Michaels SD FLOWERING LOCUS C EXPRESSOR family proteins regulate FLOWERING LOCUS C expression in both winter-annual and rapid-cycling Arabidopsis. Plant Physiol., 2013. 163(1): p. 243-52 [PMID:23899645] 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]