PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10003911m
Common NameCARUB_v10003911mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family C3H
Protein Properties Length: 140aa    MW: 15755.5 Da    PI: 8.7327
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10003911mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.64.5e-085778526
                     --SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                     lC+ f  + +C++G++C++ H+
  Carubv10003911m 57 LCNSFITSNFCPFGNSCRYVHP 78
                     8********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004514.8E-4338IPR003604Zinc finger, U1-type
SuperFamilySSF576671.03E-12447No hitNo description
PfamPF062208.8E-9537IPR013085Zinc finger, U1-C type
PROSITE profilePS5010312.7655280IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-65579IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.5E-65777IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-45778IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 140 aa     Download sequence    Send to blast
MPSGKYYCDY CDKEFQDTQV ARKRHLQSKP HLRAKALWYS SSSDLNPQVS NFATKGLCNS  60
FITSNFCPFG NSCRYVHPST GFTNNTQPHA NQLNQHIQGS TLNRDFVSGR LNTGWFDLPP  120
SLRPPPEQGY PQLPSIDWG*
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10003911m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ0007323e-41AJ000732.1 Arabidopsis thaliana ASKalpha gene.
GenBankCP0026883e-41CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
GenBankF2P163e-41AF007270.1 Arabidopsis thaliana BAC F2P16, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006286854.11e-101zinc finger CCCH domain-containing protein 3
SwissprotQ0JP117e-33C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBLR0FCD41e-100R0FCD4_9BRAS; Uncharacterized protein
STRINGXP_006286854.11e-101(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM104742225
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G26749.17e-87C3H family protein
Publications ? help Back to Top
  1. 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]