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

GSBRNA2T00103645001

Common Name

GSBRNA2T00103645001

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: 403aa MW: 43071.2 Da PI: 8.7409

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00103645001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	34.9	2.5e-11	3	26	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 elCr+f++ G C+yG+rC++ H++ GSBRNA2T00103645001 3 KELCRNFQQ-GSCRYGERCRYLHPQ 26 69*****.***********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.2E-7	1	26	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.924	1	27	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	7.38E-6	2	25	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.8E-8	3	26	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.8E-9	3	26	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: 403 aa Download sequence Send to blast
MRKELCRNFQ QGSCRYGERC RYLHPQQTIP NNPFGFGTQQ QQNKTSNNPF GFGVQGGSNS 60 NRPNQSQQPF QNTWQRNPSS GSGGASSSTQ QSSKQTQQAD HKCTDPAACK RVIQEDLKNE 120 RPMWKLTCYA HCKHLPCDVS GDISYEELRA MAYEESKRGV PLQSIAERER NLQNAKVAEF 180 ENFLRSPYRG AATSNQTPSI FPPATQVNSS PPGGFSAFNQ QPAFPNTNAG GGGPPNPFGR 240 FNQQPNAFSV NTPQPAPSGP SGFLSQPSSF GLGPAAPSAF QPSVSFKPAS FGPGPVAPSG 300 FQSQPASFGP GPGLSTPPQN SSIFPSVTPT PAFNTNQNNQ TGFSFNSPVA SFTSPAVDTT 360 NTPSGAELQA GGAPVDSSIW LKEKWNPGEI PEQAPPDAFV HR*

Sequence ? help Back to Top

Protein Sequence Length: 403 aa Download sequence Send to blast

MRKELCRNFQ QGSCRYGERC RYLHPQQTIP NNPFGFGTQQ QQNKTSNNPF GFGVQGGSNS  60
NRPNQSQQPF QNTWQRNPSS GSGGASSSTQ QSSKQTQQAD HKCTDPAACK RVIQEDLKNE  120
RPMWKLTCYA HCKHLPCDVS GDISYEELRA MAYEESKRGV PLQSIAERER NLQNAKVAEF  180
ENFLRSPYRG AATSNQTPSI FPPATQVNSS PPGGFSAFNQ QPAFPNTNAG GGGPPNPFGR  240
FNQQPNAFSV NTPQPAPSGP SGFLSQPSSF GLGPAAPSAF QPSVSFKPAS FGPGPVAPSG  300
FQSQPASFGP GPGLSTPPQN SSIFPSVTPT PAFNTNQNNQ TGFSFNSPVA SFTSPAVDTT  360
NTPSGAELQA GGAPVDSSIW LKEKWNPGEI PEQAPPDAFV HR*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.8989	0.0	seed

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00103645001

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	AC189493	1e-147	AC189493.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB084P16, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009106188.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 16
Swissprot	Q9FWS3	1e-176	C3H16_ARATH; Zinc finger CCCH domain-containing protein 16
TrEMBL	M4DH74	0.0	M4DH74_BRARP; Uncharacterized protein
STRING	Bra015851.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10724	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G75340.2	1e-158	C3H family protein

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]