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

GSBRNA2T00076172001

Common Name

GSBRNA2T00076172001, LOC106366700

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: 345aa MW: 37403.8 Da PI: 8.7925

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00076172001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	12.2	0.00054	36	59	1	23
EEETTTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt.H 23 +kC+ C+k s+ s ++ H H GSBRNA2T00076172001 36 FKCHVCHKKLSTASGMVIHVLQvH 59 89*****************87666 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50808	12.716	7	66	IPR003656	Zinc finger, BED-type
SuperFamily	SSF57667	5.95E-5	12	61	No hit	No description
SMART	SM00355	20	12	35	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	14	35	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.084	36	59	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	38	59	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 345 aa Download sequence Send to blast
MGKKKKRATE KVWCYYCDRE FDDEKILVQH QKAKHFKCHV CHKKLSTASG MVIHVLQVHK 60 ENVTKVPNSK EGRDSIDIEI YGMQGIPPDV LAAHYGEEEE ESPAKVAKIE IPSVPLGAAV 120 PRPYGMVYQP QQVPGAAPAL PMYYPGPPPM RPAGPGWPMP PPPRPQQWYP PGSVPPPPHL 180 GYRPPQLFPV HGMGMTMPSS SSPAPPGIQP SSPAMPVSQP LFPVVNSITP SQASPFSAPL 240 PVGASQQPPN NSFPVGGNNS HSYASGPNTS GPSIGPPPVI ANKAPSSQPN EVYLVWDDEA 300 MSMEERRMSL PKYKVHDETS QMNSINAAID RRISESRLAG RMAF*

Sequence ? help Back to Top

Protein Sequence Length: 345 aa Download sequence Send to blast

MGKKKKRATE KVWCYYCDRE FDDEKILVQH QKAKHFKCHV CHKKLSTASG MVIHVLQVHK  60
ENVTKVPNSK EGRDSIDIEI YGMQGIPPDV LAAHYGEEEE ESPAKVAKIE IPSVPLGAAV  120
PRPYGMVYQP QQVPGAAPAL PMYYPGPPPM RPAGPGWPMP PPPRPQQWYP PGSVPPPPHL  180
GYRPPQLFPV HGMGMTMPSS SSPAPPGIQP SSPAMPVSQP LFPVVNSITP SQASPFSAPL  240
PVGASQQPPN NSFPVGGNNS HSYASGPNTS GPSIGPPPVI ANKAPSSQPN EVYLVWDDEA  300
MSMEERRMSL PKYKVHDETS QMNSINAAID RRISESRLAG RMAF*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.8430	0.0	microspore\| microspore-derived embryo\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Barely detectable in 3-days-old seedling, and then increases. {ECO:0000269\|PubMed:17138694}.
Uniprot	TISSUE SPECIFICITY: Expressed in root, shoot apex, leaves, stem and flowers. Expressed in expanding leaves, in the vasculature of fully expanded leaves, in the inflorescence, throughout young floral primordia, in the carpels of older flowers and in fertilized ovules. {ECO:0000269\|PubMed:17079264, ECO:0000269\|PubMed:17138694}.

Functional Description ? help Back to Top
Source	Description
UniProt	Sequence-specific DNA binding factor that recognizes the 5'-CCAAATTTTAAGTTT-3' sequence. Recruits the FRI-C complex to the FLC promoter. Required for FRI-mediated FLC activation, but has no effect on the expression of MAF1, MAF2, MAF3, MAF5, UFC and CO. Dispensable for the reactivation of FLC in early embryogenesis, but required to maintain high levels of FLC expression in later embryonic and vegetative development. {ECO:0000269\|PubMed:17079264, ECO:0000269\|PubMed:17138694, ECO:0000269\|PubMed:19121105, ECO:0000269\|PubMed:21282526}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00076172001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by photoperiod or vernalization. {ECO:0000269\|PubMed:17079264, ECO:0000269\|PubMed:17138694}.

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	AK353116	0.0	AK353116.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-21-B03.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013661816.1	0.0	protein SUPPRESSOR OF FRI 4
Swissprot	Q9C5G0	0.0	SUF4_ARATH; Protein SUPPRESSOR OF FRI 4
TrEMBL	A0A078I027	0.0	A0A078I027_BRANA; BnaCnng11040D protein
STRING	Bo5g065610.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7695	17	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30970.1	1e-172	C2H2 family protein

Link Out ? help Back to Top
Entrez Gene	106366700

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] Resentini F, et al. SUPPRESSOR OF FRIGIDA (SUF4) Supports Gamete Fusion via Regulating Arabidopsis EC1 Gene Expression. Plant Physiol., 2017. 173(1): p. 155-166 [PMID:27920160]