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 Carubv10013665m
Common NameCARUB_v10013665mg
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: 458aa    MW: 48145.8 Da    PI: 7.9184
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10013665mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH37.25e-125882327
                     S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH  3 telCrffartGtCkyGdrCkFaHgp 27
                     ++ C +++rtG C yG+rC+F+H++
  Carubv10013665m 58 EPDCIYYLRTGVCGYGSRCRFNHPR 82
                     689********************96 PP
2zf-CCCH37.15.1e-12104128327
                      S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                      ++ C++f+rtGtCk+G++Ck++H++
  Carubv10013665m 104 HPVCQHFMRTGTCKFGASCKYHHPR 128
                      789********************96 PP
3zf-CCCH391.3e-12150174226
                      -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                      ++++C++++rtG+Ck+G +C+F+H+
  Carubv10013665m 150 GEKECSYYMRTGQCKFGLTCRFNHP 174
                      6789********************9 PP
4zf-CCCH406.4e-13303327226
                      -S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                      ++++C++f+rtG Ck+G++C+++H+
  Carubv10013665m 303 DQPECQYFMRTGDCKFGSSCRYHHP 327
                      689*********************9 PP
5zf-CCCH32.61.3e-10349374227
                      -S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                      + + C +fa+ G+Ck+G+ CkF H++
  Carubv10013665m 349 GVAQCTHFAQHGICKFGPACKFDHSM 374
                      6788********************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.615583IPR000571Zinc finger, CCCH-type
SMARTSM003564.1E-45682IPR000571Zinc finger, CCCH-type
PfamPF006422.0E-95882IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-65983IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.9E-56182IPR000571Zinc finger, CCCH-type
SMARTSM003566.1E-6101128IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.619101129IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.35E-6102128IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-9103128IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.6E-5106128IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.089148176IPR000571Zinc finger, CCCH-type
SMARTSM003561.5E-5148175IPR000571Zinc finger, CCCH-type
PfamPF006424.0E-10150174IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-5151175IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.6E-4154173IPR000571Zinc finger, CCCH-type
SMARTSM003568.5E-6301328IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.854301329IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-10303327IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.53E-6304330IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.3E-4307327IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.723347375IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-4347374IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-8349373IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.24E-5350375IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.9E-4353374IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 458 aa     Download sequence    Send to blast
MERYGRAGEE GQRSDPSLEW TSHGGGETGV EASMWRLGLS GGGGGGGGGE SYPERADEPD  60
CIYYLRTGVC GYGSRCRFNH PRDRGAVIGS VRGEAGALPE RMGHPVCQHF MRTGTCKFGA  120
SCKYHHPRQG GGGSVAPVSL SYLGFPLRQG EKECSYYMRT GQCKFGLTCR FNHPVPLAVQ  180
GPPQPQQQQP QLQTIYPTLQ SQSVPSSQQY GLLLTRPSLL PGSYLPSPYG PPMVLPPGMV  240
PYPGWNPYQA SLSAMPSPGT QPSIGSSSVY GIAPLPPSAT TYTGPYQSGP SSNTSKEFPQ  300
RPDQPECQYF MRTGDCKFGS SCRYHHPVDA VPPKTGIVLS SIGLPLRPGV AQCTHFAQHG  360
ICKFGPACKF DHSMSSSLSY SPSASSLTDM PVAPYPIGSS SLSGSSAPAS SSNEPISEVV  420
NAAVSSSIIS GLSRPEPAET SGDSASVSGS IEAKTSS*
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10013665m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2304380.0AK230438.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL25-43-G06.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006297647.10.0zinc finger CCCH domain-containing protein 34
SwissprotQ9SQU40.0C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBLR0HYC60.0R0HYC6_9BRAS; Uncharacterized protein
STRINGXP_006297647.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17792786
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G06410.10.0C3H family protein
Publications ? help Back to Top
  1. 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]