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

GSBRNA2T00158018001

Common Name

GSBRNA2T00158018001

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: 387aa MW: 44568.4 Da PI: 7.9851

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00158018001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	32.9	1.1e-10	78	102	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 e C +++++G+C yG +C+F+H+p GSBRNA2T00158018001 78 VEDCYYYLKNGFCGYGLSCRFNHPP 102 699********************97 PP
2	zf-CCCH	32.5	1.5e-10	147	169	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 Cr ++++G+C+yG++C+F+H+p GSBRNA2T00158018001 147 DCRQYLQSGQCSYGPKCRFNHPP 169 6********************97 PP
3	zf-CCCH	33.7	6e-11	178	200	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 Cr +++tG+C+yG++C+++H+p GSBRNA2T00158018001 178 DCRQYLQTGQCSYGPKCRYNHPP 200 5********************97 PP
4	zf-CCCH	24.3	5.6e-08	210	232	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C+ff++ G CkyG+ CkF H+ GSBRNA2T00158018001 210 RQICKFFQK-GNCKYGSGCKFTHS 232 579****.***********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	12.934	75	103	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-5	75	102	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-5	76	101	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-8	78	102	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.2E-4	81	100	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.934	142	170	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0025	144	169	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.62E-5	147	170	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.1E-8	147	169	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.5E-6	148	168	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.906	173	201	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.7E-6	173	200	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-5	178	201	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-8	178	200	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-5	179	199	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.713	207	234	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-6	209	232	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.7E-4	209	233	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-5	210	232	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-6	211	233	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: 387 aa Download sequence Send to blast
MSDRENLEKG DEEAKETDTR RESTSIEETE GRDPDSGPSE SNVRTDLRHE IYPRSGAEKR 60 ENEPERHGLG EYPVRIGVED CYYYLKNGFC GYGLSCRFNH PPVSENTKKE YLLCLDSRFS 120 HGLYSLIHRN QMRHGMVQPS PYPGAGDCRQ YLQSGQCSYG PKCRFNHPPS PRDLGAIDCR 180 QYLQTGQCSY GPKCRYNHPP SPVLSQWVSR QICKFFQKGN CKYGSGCKFT HSMSGDGAEA 240 EPMRQDTTWG KKRHAAKSSS RPWKRTRVIE RQAHDLEEHK QKKRKVENLR IDPNAQSGEG 300 GSQTEQRLEV PENFNVNAQE QADMERQNRE AQEKAQEERR LQIDNERRQA RLRLERMQPR 360 VLTNNVDQLR EALPDIGIER KEGDGF*

Sequence ? help Back to Top

Protein Sequence Length: 387 aa Download sequence Send to blast

MSDRENLEKG DEEAKETDTR RESTSIEETE GRDPDSGPSE SNVRTDLRHE IYPRSGAEKR  60
ENEPERHGLG EYPVRIGVED CYYYLKNGFC GYGLSCRFNH PPVSENTKKE YLLCLDSRFS  120
HGLYSLIHRN QMRHGMVQPS PYPGAGDCRQ YLQSGQCSYG PKCRFNHPPS PRDLGAIDCR  180
QYLQTGQCSY GPKCRYNHPP SPVLSQWVSR QICKFFQKGN CKYGSGCKFT HSMSGDGAEA  240
EPMRQDTTWG KKRHAAKSSS RPWKRTRVIE RQAHDLEEHK QKKRKVENLR IDPNAQSGEG  300
GSQTEQRLEV PENFNVNAQE QADMERQNRE AQEKAQEERR LQIDNERRQA RLRLERMQPR  360
VLTNNVDQLR EALPDIGIER KEGDGF*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00158018001

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_022561447.1	0.0	zinc finger CCCH domain-containing protein 33-like
Refseq	XP_022568298.1	0.0	zinc finger CCCH domain-containing protein 33-like
TrEMBL	A0A0D3D605	0.0	A0A0D3D605_BRAOL; Uncharacterized protein
STRING	Bo7g045330.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14832	8	17

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12680.1	3e-20	floral homeotic protein (HUA1)

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]