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

GSBRNA2T00088008001

Common Name

GSBRNA2T00088008001

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: 343aa MW: 39521.9 Da PI: 8.204

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00088008001	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	2.1e-10	51	75	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 e C ++++ G C yG +C+F+H+p GSBRNA2T00088008001 51 VEDCYYYMKKGRCGYGLSCRFNHPP 75 699********************97 PP
2	zf-CCCH	32.8	1.2e-10	119	141	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 C +++tG+C+yG +C+F+H+p GSBRNA2T00088008001 119 DCIQYLQTGQCSYGLKCRFNHPP 141 5********************97 PP
3	zf-CCCH	33.9	5.2e-11	150	172	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 Cr +++tG+C+yG++C+++H+p GSBRNA2T00088008001 150 DCRQYLQTGQCSYGPKCRYNHPP 172 5********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.009	48	76	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.6E-5	48	75	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-5	49	74	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-7	51	75	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.9E-4	54	73	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.953	114	142	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.038	116	141	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.1E-8	119	141	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.76E-5	119	142	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-4	120	140	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.652	145	173	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.9E-6	145	172	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-5	150	173	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.6E-9	150	172	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.8E-6	151	171	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.408	174	194	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	16	174	193	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.8E-4	175	193	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: 343 aa Download sequence Send to blast
MSDRENPEKG DEEAKETDTR TESTSMEETE ENATQRHGLG ESSEYPVRIG VEDCYYYMKK 60 GRCGYGLSCR FNHPPLPQRD QMRHDMVQPS PYPVRPQLPE RSQMRHGMVQ PSTYPGAGDC 120 IQYLQTGQCS YGLKCRFNHP PSPRDIGAID CRQYLQTGQC SYGPKCRYNH PPSPFFQKGN 180 CKYGSGCKFT HSMSGDGAEA EPMRQDTSWG KKRHAAKSSS RPWKRERQAH DLEEHKQKKR 240 KVENLRIDPN VQSGEGGSQT EQRLEIPENL NVNAQEQADM ERQNREAQEK AQEERRLRID 300 NERRQARLRL ERMKPRVLTS NVDQLREALR DIGIERKEGD GF*

Sequence ? help Back to Top

Protein Sequence Length: 343 aa Download sequence Send to blast

MSDRENPEKG DEEAKETDTR TESTSMEETE ENATQRHGLG ESSEYPVRIG VEDCYYYMKK  60
GRCGYGLSCR FNHPPLPQRD QMRHDMVQPS PYPVRPQLPE RSQMRHGMVQ PSTYPGAGDC  120
IQYLQTGQCS YGLKCRFNHP PSPRDIGAID CRQYLQTGQC SYGPKCRYNH PPSPFFQKGN  180
CKYGSGCKFT HSMSGDGAEA EPMRQDTSWG KKRHAAKSSS RPWKRERQAH DLEEHKQKKR  240
KVENLRIDPN VQSGEGGSQT EQRLEIPENL NVNAQEQADM ERQNREAQEK AQEERRLRID  300
NERRQARLRL ERMKPRVLTS NVDQLREALR DIGIERKEGD GF*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00088008001

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_022544439.1	0.0	putative zinc finger CCCH domain-containing protein 9
TrEMBL	A0A078IEW5	0.0	A0A078IEW5_BRANA; BnaA02g16620D protein
STRING	Bra030149.1-P	0.0	(Brassica rapa)

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	1e-21	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]