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

Rsa1.0_04654.1_g00002.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

C3H

Protein Properties

Length: 87aa MW: 9079.19 Da PI: 7.9193

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_04654.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	41.5	2.1e-13	26	50	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C +++rtG+C yG+rC+F+H++ Rsa1.0_04654.1_g00002.1 26 EPDCIYYLRTGICGYGSRCRFNHPR 50 689********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	6.8E-6	23	50	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.061	23	51	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.2E-11	26	50	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-7	27	51	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.4E-6	29	50	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: 87 aa Download sequence Send to blast
MWRLGLSGGG AGGGGGGEAY PERSNEPDCI YYLRTGICGY GSRCRFNHPR DRGAVVGGVR 60 GGVGEDGALP DRMGQPICQV LYTLSLS

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_04654.1_g00002.1

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	AC189233	5e-48	AC189233.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB013O20, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006407949.1	4e-33	zinc finger CCCH domain-containing protein 34
Swissprot	Q9SQU4	3e-32	C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBL	V4M3D6	1e-31	V4M3D6_EUTSA; Uncharacterized protein
STRING	XP_006407949.1	2e-32	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM25792	3	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G06410.1	8e-22	C3H family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]