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_00930.1_g00008.1

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: 147aa MW: 16479.2 Da PI: 7.8902

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00930.1_g00008.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23.3	1.1e-07	59	80	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 lC++f + +C++Gd+C++ H+ Rsa1.0_00930.1_g00008.1 59 LCNRFVSSNFCPFGDSCRYLHP 80 8********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	7.34E-12	4	49	No hit	No description
Pfam	PF06220	6.4E-8	5	37	IPR013085	Zinc finger, U1-C type
PROSITE profile	PS50103	13.432	54	82	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.22E-6	56	81	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.1E-6	59	80	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.6E-6	59	79	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 147 aa Download sequence Send to blast
MPSGKYYCDY CEKEFQDTQV ARKRHLQSNP HLRAKALWYS STPSDVNNHQ VSSFVPRGLC 60 NRFVSSNFCP FGDSCRYLHP NNIPGSTGYT TTNNNNTQLL AGLPNQHIQG SDIFSGRGEG 120 TGWFDLPPSL RPPPEQGYPQ LPSIDWG

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00930.1_g00008.1

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_018471049.1	3e-97	PREDICTED: zinc finger CCCH domain-containing protein 3-like
Swissprot	Q0JP11	1e-32	C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBL	A0A078G4X2	1e-89	A0A078G4X2_BRANA; BnaA09g04110D protein
STRING	XP_006394904.1	3e-78	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10474	22	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G26749.1	6e-76	C3H family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]