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 XP_009126071.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family CO-like
Protein Properties Length: 315aa    MW: 35249.6 Da    PI: 7.4608
Description CO-like family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009126071.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-B_box20.69.3e-071052440
        zf-B_box  4 rkCpeHeekelqlfCedCqqllCedClleeHkg......Htvv 40
                    ++C+++ +   + +C+ ++ +lC++C  + H        H++v
  XP_009126071.1 10 QVCNTCRSAACTVYCRADSAYLCATCDAQVHAAnllasrHERV 52
                    58******99*********************657788888776 PP
2zf-B_box32.32.1e-105297342
        zf-B_box  3 erkCpeHeekelqlfCedCqqllCedClleeHkg......Htvvpl 42
                     r+C+ +e+ ++ +fC+ +   lC  C +++H        H++vp+
  XP_009126071.1 52 VRVCEACERAPAAFFCKADAASLCIACDSQIHLVnplarrHQRVPI 97
                    689*****************************33455556999986 PP
3CCT67.82.8e-23246290145
             CCT   1 ReaallRYkeKrktRkFeKkirYesRKavAesRpRvKGrFvkqae 45 
                     Rea+++RY+eK+ktRkFeK++rY+sRKa+Ae+RpR+KGrFvk++e
  XP_009126071.1 246 REARVMRYREKKKTRKFEKRVRYASRKAYAETRPRIKGRFVKREE 290
                     9*****************************************975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003368.8E-9754IPR000315B-box-type zinc finger
PROSITE profilePS5011910.68754IPR000315B-box-type zinc finger
CDDcd000214.75E-71154No hitNo description
PROSITE profilePS5011912.1875097IPR000315B-box-type zinc finger
PfamPF006434.3E-85297IPR000315B-box-type zinc finger
CDDcd000218.44E-105397No hitNo description
SMARTSM003362.9E-105597IPR000315B-box-type zinc finger
PROSITE profilePS5101716.847246288IPR010402CCT domain
PfamPF062031.0E-17246288IPR010402CCT domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005622Cellular Componentintracellular
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 315 aa     Download sequence    Send to blast
MLKQDRNWTQ VCNTCRSAAC TVYCRADSAY LCATCDAQVH AANLLASRHE RVRVCEACER  60
APAAFFCKAD AASLCIACDS QIHLVNPLAR RHQRVPILPI SSMATNHSSE TTAMTGPENI  120
VVMGQEEEDE TEVASWLLPS SEKNSGNNNN SLDLVDYQQD YNVPRSRYAR DGVVPLQVEE  180
SKAHMHHEQH NFQFGFTNVS SGCHMVSLVP ESTTSDTTVL LHSPSPKAAT DQLPDPSTQI  240
LSPGEREARV MRYREKKKTR KFEKRVRYAS RKAYAETRPR IKGRFVKREE VDAEADQGFS  300
TMTMFNTGYG VVPSL
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed throughout development.
UniprotTISSUE SPECIFICITY: Highly expressed in leaves and at lower levels in stems, flowers and siliques. Not detected in roots.
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor that may be involved in the light input to the circadian clock but does not affect flowering time.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009126071.1
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
GenBankAC2400870.0AC240087.1 Brassica oleracea clone BOT01-44D22, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009126071.10.0PREDICTED: zinc finger protein CONSTANS-LIKE 1-like
SwissprotO500551e-136COL1_ARATH; Zinc finger protein CONSTANS-LIKE 1
TrEMBLM4E4380.0M4E438_BRARP; Uncharacterized protein
STRINGBra023541.1-P0.0(Brassica rapa)
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
AT5G15850.11e-113CONSTANS-like 1
Publications ? help Back to Top
  1. 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]
  2. An C, et al.
    Mediator subunit MED25 links the jasmonate receptor to transcriptionally active chromatin.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(42): p. E8930-E8939
    [PMID:28973940]
  3. Ordoñez-Herrera N, et al.
    The Transcription Factor COL12 Is a Substrate of the COP1/SPA E3 Ligase and Regulates Flowering Time and Plant Architecture.
    Plant Physiol., 2018. 176(2): p. 1327-1340
    [PMID:29187570]