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

XP_009132957.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 468aa MW: 50952.7 Da PI: 7.058

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009132957.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.5	7.3e-06	34	54	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ff + G+C G +C+F H+ XP_009132957.1 34 PCKFFGQ-GWCDNGISCRFLHV 54 7****.***********7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	2.22E-5	29	53	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.751	29	56	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.0E-4	34	56	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: 468 aa Download sequence Send to blast
MLGEAKDMLL SRFPAPAPSF PLVNGPEQKR ASLPCKFFGQ GWCDNGISCR FLHVKENMNG 60 TSQQQWGNHM AGTSGIQSVE GENGVASLVN PSGGHEILFV PSLGNMEMER GSLPKGGAVF 120 TEDRPVFVNS TSSFPLKSSF VQEHGASITS YGQTDMGSSA PAWTGSLFSS TPMNQYASKL 180 GNCENMNDKN GSGSLPMVQA ISVSSVQDAE GDRTSNNKKV YSHDWEPSEP FRASFTIPPY 240 ILPSSDALYD PFTDIENPQD RSLTAPLSSK GRYAQKKSSQ QKDDESASDN KNSSCSNNQY 300 QESMATKNLE AHGVVEGVAT SVVDQNDETT PSKEVSAENR SVLKRSKPAG HGSWRRSDGS 360 SHQKVLKSDE RDGEARSDAG TKAMRQFRTA VVETIKEMVK PLWREGRLTK EVHNMVVKRA 420 SEKIVSAAVQ SHQVPTDSAF VDQYLSMSAT KIVKLVEGYV EKYGKPKP

Sequence ? help Back to Top

Protein Sequence Length: 468 aa Download sequence Send to blast

MLGEAKDMLL SRFPAPAPSF PLVNGPEQKR ASLPCKFFGQ GWCDNGISCR FLHVKENMNG  60
TSQQQWGNHM AGTSGIQSVE GENGVASLVN PSGGHEILFV PSLGNMEMER GSLPKGGAVF  120
TEDRPVFVNS TSSFPLKSSF VQEHGASITS YGQTDMGSSA PAWTGSLFSS TPMNQYASKL  180
GNCENMNDKN GSGSLPMVQA ISVSSVQDAE GDRTSNNKKV YSHDWEPSEP FRASFTIPPY  240
ILPSSDALYD PFTDIENPQD RSLTAPLSSK GRYAQKKSSQ QKDDESASDN KNSSCSNNQY  300
QESMATKNLE AHGVVEGVAT SVVDQNDETT PSKEVSAENR SVLKRSKPAG HGSWRRSDGS  360
SHQKVLKSDE RDGEARSDAG TKAMRQFRTA VVETIKEMVK PLWREGRLTK EVHNMVVKRA  420
SEKIVSAAVQ SHQVPTDSAF VDQYLSMSAT KIVKLVEGYV EKYGKPKP

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	XP_009132957.1

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	AC241146	0.0	AC241146.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH072P15, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009132957.1	0.0	PREDICTED: protein FRIGIDA-ESSENTIAL 1-like
Refseq	XP_009132962.2	0.0	PREDICTED: protein FRIGIDA-ESSENTIAL 1-like
Swissprot	Q84VG7	0.0	FES1_ARATH; Protein FRIGIDA-ESSENTIAL 1
TrEMBL	M4E2F7	0.0	M4E2F7_BRARP; Uncharacterized protein
STRING	Bra022958.1-P	0.0	(Brassica rapa)

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]