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 Gorai.009G153900.1
Common NameB456_009G153900, LOC105767961
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family TCP
Protein Properties Length: 411aa    MW: 45001.5 Da    PI: 8.2869
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G153900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP122.35.3e-38842372135
                 TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt..................ssssasec. 73 
                          g+kdrhsk+ T++g+RdRRvRls+++a++f+dLqd+LG+d++sk+ieWL+++a  ai el+++                  +++sa+ + 
  Gorai.009G153900.1  84 SGGKDRHSKVWTSKGLRDRRVRLSVTTAIQFYDLQDRLGYDQPSKAIEWLIKAAADAIAELPSLntsfpdtprqlsddgteqGFDSAE-Ve 173
                         689*************************************************************888887777777776666555553.23 PP

                 TCP  74 eaesssssasnsssg.kaaksaakskksqksaasalnlak.esrakarararertrekmriknk 135
                          +++ ++ ++n+s++  + +++a+s+ s+ s++s l+l++ e r kar+rar r ++++ +++k
  Gorai.009G153900.1 174 LDGDPNNYQENQSQQhLSLSKSACSSTSEISKNSGLSLSRsENRVKARERARGRVAKEKGKEQK 237
                         44444444444444435566667999999999999*****9************77666655544 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036342.9E-4085232IPR005333Transcription factor, TCP
PROSITE profilePS5136931.42286144IPR017887Transcription factor TCP subgroup
PROSITE profilePS513709.487214232IPR017888CYC/TB1, R domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:1903508Biological Processpositive regulation of nucleic acid-templated transcription
GO:2000306Biological Processpositive regulation of photomorphogenesis
Sequence ? help Back to Top
Protein Sequence    Length: 411 aa     Download sequence    Send to blast
MEIDEIQTQQ GSKFSRVGNG RSESSRMGQK GSDNYYPDDE EGREVMKRAS ANGGGGDALA  60
DTAAANRLRG WHHSSRIIRV SRASGGKDRH SKVWTSKGLR DRRVRLSVTT AIQFYDLQDR  120
LGYDQPSKAI EWLIKAAADA IAELPSLNTS FPDTPRQLSD DGTEQGFDSA EVELDGDPNN  180
YQENQSQQHL SLSKSACSST SEISKNSGLS LSRSENRVKA RERARGRVAK EKGKEQKTDI  240
AHQQNVNPIS HNSSFTELLT CGIGSVSNNH TSPSPTASAR QNPRQWPVTQ MDYFTMGLLG  300
PSSSRNQSSG FPGQMQQPQP ILIPPFTVSG ENNQKLQHFS FVPNTDHMIP VATAQPVLGS  360
DYNLNFAISS GIAGFNRGTL QSNSPPFLPH HLQRFSSIEG SPPVENHHHH *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A2e-2391145155Putative transcription factor PCF6
5zkt_B2e-2391145155Putative transcription factor PCF6
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.10610.0flower|seedling| flowering
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During flower development, first observed throughout the floral meristem. Later expressed in rapidly growing floral primordia. Detected to a lower extent in vegetative primordia. During flower development, first observed throughout the floral meristem. Expressed during ovule development (PubMed:25378179). {ECO:0000269|PubMed:10363373, ECO:0000269|PubMed:25378179}.
UniprotTISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, buds, flowers and immature siliques. {ECO:0000269|PubMed:17307931}.
Functional Description ? help Back to Top
Source Description
UniProtPlays a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164). Participates in ovule develpment (PubMed:25378179). Participates in ovule develpment (PubMed:25378179). Promotes light-regulated transcription of CHS, CAB, HYH and HY5. Regulates positively photomorphogenesis (e.g. hypocotyl elongation inhibition and cotyledon opening in response to blue light) (PubMed:26596765). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179, ECO:0000269|PubMed:26596765}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00006PBMTransfer from 493022Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the miRNA miR-JAW (PubMed:12931144). Induced by blue light. Stabilized by light but labile in darkness due to proteasome-dependent proteolysis (at protein level) (PubMed:26596765). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:26596765}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012443040.10.0PREDICTED: transcription factor TCP2-like
SwissprotQ93V436e-73TCP2_ARATH; Transcription factor TCP2
TrEMBLA0A0D2QGS20.0A0A0D2QGS2_GOSRA; Uncharacterized protein
STRINGGorai.009G153900.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM76152539
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18390.24e-64TEOSINTE BRANCHED 1, cycloidea and PCF transcription factor 2
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. Koyama T,Sato F,Ohme-Takagi M
    Roles of miR319 and TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2017. 175(2): p. 874-885
    [PMID:28842549]
  3. Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C
    Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2018. 176(2): p. 1694-1708
    [PMID:29133375]