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

GSBRNA2T00141565001

Common Name

GSBRNA2T00141565001, LOC106415047, LOC106431227

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: 419aa MW: 46782.7 Da PI: 6.0342

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00141565001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	39.2	1.2e-12	89	111	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C+f+ rtG CkyG++CkF+H+ GSBRNA2T00141565001 89 EDCSFYIRTGSCKYGSSCKFNHP 111 89********************9 PP
2	zf-CCCH	29.9	9.3e-10	139	159	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +C++++rtG CkyG++C+F+H GSBRNA2T00141565001 139 ECKYYFRTGGCKYGETCRFSH 159 6******************** PP
3	zf-CCCH	37.6	3.7e-12	182	206	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f++r+G Ck+G+ CkF+H+ GSBRNA2T00141565001 182 GEKECPFYMRNGSCKFGGDCKFNHP 206 7899********************9 PP
4	zf-CCCH	18.4	3.7e-06	319	344	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++ +tG Ck+ +Ck++H++ GSBRNA2T00141565001 319 DQPECSYYVKTGDCKFKYKCKYHHPK 344 689*********************96 PP
5	zf-CCCH	32.5	1.5e-10	366	389	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 ++ C +++r+G+Ck+G+ C+F H+ GSBRNA2T00141565001 366 QSMCTHYSRYGICKFGPACRFDHS 389 578********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	1.96E-6	83	113	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.821	85	113	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.5E-5	85	112	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.1E-9	89	111	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.8E-5	91	110	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.0E-4	134	161	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.699	134	162	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.35E-6	135	162	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.0E-7	139	159	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.1E-5	140	162	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-6	180	207	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.601	180	208	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.2E-6	182	207	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.9E-10	182	206	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.076	317	344	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.577	317	345	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.5E-5	321	347	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0072	363	390	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.662	363	391	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.84E-6	363	391	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.8E-5	367	389	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-7	369	389	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: 419 aa Download sequence Send to blast
MSKPDPDPKP PSGSSTEKDP VADHVTEELS DDLRNVGLSD EATEELSVPI NVSEGDGETD 60 QKAEDEEEEE GRERVEKRMM VYPVRPDAED CSFYIRTGSC KYGSSCKFNH PVRRKLQIGR 120 EKVKEKEREE NVENPRLMEC KYYFRTGGCK YGETCRFSHT KEHTPLPSRP ELNFLGLPIR 180 PGEKECPFYM RNGSCKFGGD CKFNHPDPTA VGGVDSPLFR GNNGGSFAPK DAPQASSTSW 240 SSPRHMNGTG TAPFIPVMYS QNRGVSPQTP EWSGYQAPSA YPPERNILPP STYSANNSLA 300 ETSSFSQLQS TEEFPERPDQ PECSYYVKTG DCKFKYKCKY HHPKNRLPKQ SPSSFNDKGL 360 PLRPEQSMCT HYSRYGICKF GPACRFDHSI PPTFSSTSSQ TVETPQLGGN GNENDGWN*

Sequence ? help Back to Top

Protein Sequence Length: 419 aa Download sequence Send to blast

MSKPDPDPKP PSGSSTEKDP VADHVTEELS DDLRNVGLSD EATEELSVPI NVSEGDGETD  60
QKAEDEEEEE GRERVEKRMM VYPVRPDAED CSFYIRTGSC KYGSSCKFNH PVRRKLQIGR  120
EKVKEKEREE NVENPRLMEC KYYFRTGGCK YGETCRFSHT KEHTPLPSRP ELNFLGLPIR  180
PGEKECPFYM RNGSCKFGGD CKFNHPDPTA VGGVDSPLFR GNNGGSFAPK DAPQASSTSW  240
SSPRHMNGTG TAPFIPVMYS QNRGVSPQTP EWSGYQAPSA YPPERNILPP STYSANNSLA  300
ETSSFSQLQS TEEFPERPDQ PECSYYVKTG DCKFKYKCKY HHPKNRLPKQ SPSSFNDKGL  360
PLRPEQSMCT HYSRYGICKF GPACRFDHSI PPTFSSTSSQ TVETPQLGGN GNENDGWN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00141565001

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_013711113.1	0.0	zinc finger CCCH domain-containing protein 67-like
Refseq	XP_013727491.1	0.0	zinc finger CCCH domain-containing protein 67-like
Swissprot	Q5RJC5	0.0	C3H67_ARATH; Zinc finger CCCH domain-containing protein 67
TrEMBL	A0A0D3BFH3	0.0	A0A0D3BFH3_BRAOL; Uncharacterized protein
STRING	Bo3g103620.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4176	27	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63260.1	0.0	C3H family protein

Link Out ? help Back to Top
Entrez Gene	106415047 \| 106431227

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]