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 Carubv10015501m
Common NameCARUB_v10015501mg
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 CO-like
Protein Properties Length: 345aa    MW: 38276.4 Da    PI: 5.4292
Description CO-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10015501mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-B_box18.64e-061456440
         zf-B_box  4 rkCpeHeekelqlfCedCqqllCedClleeHkg......Htvv 40
                     r C+++ +   + +Ce ++ +lC++C    H        H++v
  Carubv10015501m 14 RACDTCRSAACTVYCEADSAYLCNTCDARVHVAnrlasrHERV 56
                     57******99*****************9999444566677765 PP
2zf-B_box36.11.3e-1156101342
         zf-B_box   3 erkCpeHeekelqlfCedCqqllCedClleeHkg......Htvvpl 42 
                       r+C+ +e+ ++ +fC+ +   lC  C  e+H+       H++vp+
  Carubv10015501m  56 VRVCQSCESAPAAFFCKADAASLCTACDAEIHSAnplarrHQRVPI 101
                      689*****************************66899999**9997 PP
3CCT68.51.8e-23275317143
              CCT   1 ReaallRYkeKrktRkFeKkirYesRKavAesRpRvKGrFvkq 43 
                      Rea++lRY+eK+ktRkF+K+irY+sRKa+Ae RpR+KGrF+k+
  Carubv10015501m 275 REARVLRYREKKKTRKFDKTIRYASRKAYAEIRPRIKGRFAKR 317
                      9****************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5011910.6231158IPR000315B-box-type zinc finger
SMARTSM003361.6E-91158IPR000315B-box-type zinc finger
CDDcd000219.18E-81458No hitNo description
PROSITE profilePS5011912.2354101IPR000315B-box-type zinc finger
PfamPF006434.3E-956101IPR000315B-box-type zinc finger
CDDcd000216.25E-1057101No hitNo description
SMARTSM003362.3E-1259101IPR000315B-box-type zinc finger
PROSITE profilePS5101716.44275317IPR010402CCT domain
PfamPF062033.1E-17275317IPR010402CCT domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009658Biological Processchloroplast organization
GO:0009909Biological Processregulation of flower development
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048576Biological Processpositive regulation of short-day photoperiodism, flowering
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0005622Cellular Componentintracellular
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 345 aa     Download sequence    Send to blast
MLKEESNESG TWARACDTCR SAACTVYCEA DSAYLCNTCD ARVHVANRLA SRHERVRVCQ  60
SCESAPAAFF CKADAASLCT ACDAEIHSAN PLARRHQRVP ILPLSANSCD SMAPSEADDA  120
DNDEDDREVA SWLLPNPGKT SGNQNNGFLF GVEYLDLVDY SSSLDNQFDD HQYSQYQQSF  180
GGDGVVPLQV EESTNHLKQS QHNFQLGINY SGAHYNSSIK DLNYSASVSS MDISVVPEST  240
ASDITVHHPR TTRETIDQLS GPPTPMVQQL TPMEREARVL RYREKKKTRK FDKTIRYASR  300
KAYAEIRPRI KGRFAKRIEI EAEAEEIFSA SLMSETGYGI VPSF*
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor. Does not affect flowering time.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10015501m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankATHCOL2A0.0L81120.1 Arabidopsis thaliana Landsberg erecta COL2 (CONSTANS) mRNA, complete cds.
GenBankAY0887790.0AY088779.1 Arabidopsis thaliana clone 949 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006299343.10.0zinc finger protein CONSTANS-LIKE 2
SwissprotQ965020.0COL2_ARATH; Zinc finger protein CONSTANS-LIKE 2
TrEMBLR0G9L80.0R0G9L8_9BRAS; Uncharacterized protein
STRINGXP_006299343.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM21282670
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02380.10.0CONSTANS-like 2
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. Simon S,Rühl M,de Montaigu A,Wötzel S,Coupland G
    Evolution of CONSTANS Regulation and Function after Gene Duplication Produced a Photoperiodic Flowering Switch in the Brassicaceae.
    Mol. Biol. Evol., 2015. 32(9): p. 2284-301
    [PMID:25972346]