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 Carubv10013873m
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: 401aa    MW: 44347.7 Da    PI: 7.8788
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10013873mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH34.63.1e-114167127
                     --S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                     ++++ C+++ rtG C++G++C+F+H++
  Carubv10013873m 41 PGEPDCSYYIRTGLCRFGSTCRFNHPR 67
                     5789*********************96 PP
2zf-CCCH37.63.8e-1288112327
                      S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                      +++C ++++tGtCk+G +CkF+H++
  Carubv10013873m  88 QPECEYYLKTGTCKFGVTCKFHHPR 112
                      799********************96 PP
3zf-CCCH36.39.1e-12134158327
                      S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                      ++ C +f+rtG+Ck+G++CkF+H++
  Carubv10013873m 134 EVDCAYFLRTGHCKFGGTCKFNHPQ 158
                      578********************97 PP
4zf-CCCH37.15.3e-12275301127
                      --S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                      +++++C+f+++tG Ck+G  CkF+H++
  Carubv10013873m 275 PGQPECQFYMKTGDCKFGTVCKFHHPR 301
                      5789*********************96 PP
5zf-CCCH35.41.9e-11321347127
                      --S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                      ++++lC f+ r+G+Ck+G++CkF H++
  Carubv10013873m 321 PGEPLCVFYTRYGICKFGPSCKFDHPM 347
                      589**********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003567.0E-54067IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.6994068IPR000571Zinc finger, CCCH-type
PfamPF006429.2E-84267IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.81E-64568IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.8E-44667IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.10885113IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-585112IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-988112IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-689114IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.8E-491112IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.549131159IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-5131158IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-9134158IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.67E-6134160IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.9E-4137157IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.22274302IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-5274301IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-8276301IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.33E-6278303IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-4280302IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.187320348IPR000571Zinc finger, CCCH-type
SMARTSM003563.9E-7320347IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-8322347IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-5323347IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.3E-4325345IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0017148Biological Processnegative regulation of translation
GO:0005829Cellular Componentcytosol
GO:0010313Molecular Functionphytochrome binding
GO:0046872Molecular Functionmetal ion binding
GO:0048027Molecular FunctionmRNA 5'-UTR binding
Sequence ? help Back to Top
Protein Sequence    Length: 401 aa     Download sequence    Send to blast
MDFNAGVPMS SLSPLMNQDA MWQMNLSSDE TMETGSYPER PGEPDCSYYI RTGLCRFGST  60
CRFNHPRDRE LVIATARMRG EYPERIGQPE CEYYLKTGTC KFGVTCKFHH PRNKAGIAGR  120
VSLNMLGYPL RSNEVDCAYF LRTGHCKFGG TCKFNHPQPQ PTNMMVPTSG QQSYPWSRAS  180
FIASPRWQDP SSYASLIMPQ GVVPVQGWNP YSGQLGSVSP SGTGNDLNYR SLQQSETKES  240
STQSQGSFSG FNPGSSVPLG GFYALPRENV FPERPGQPEC QFYMKTGDCK FGTVCKFHHP  300
RDRQAPPPDC LLSSIGLPLR PGEPLCVFYT RYGICKFGPS CKFDHPMRVF TYDNTASESD  360
EVVETSTGHS RRLSVSETRQ GAAAATTTSG KDSTIDTQQQ *
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10013873m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0259660.0BT025966.1 Arabidopsis thaliana At3g02830 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006296584.20.0zinc finger CCCH domain-containing protein 33
SwissprotQ8GXX70.0C3H33_ARATH; Zinc finger CCCH domain-containing protein 33
TrEMBLA0A178VJ680.0A0A178VJ68_ARATH; ZFN1
STRINGCagra.1194s0020.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33892864
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.10.0zinc finger protein 1
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]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]