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.012G048500.1
Common NameB456_012G048500, LOC105780510
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: 310aa    MW: 34162.3 Da    PI: 8.9496
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G048500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP1021e-31491652105
                 TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssasec.eaesssssasnsssg... 88 
                          g+kdrhsk+ T +g+RdRRvRls+++a++++dLqd+LG+ ++sk ++WLl++ak++i el+ ++ ++ +++ ++++  +++++++++   
  Gorai.012G048500.1  49 FGGKDRHSKVFTVRGLRDRRVRLSVPTAIQLYDLQDRLGLNQPSKVVDWLLNEAKHEIEELPPLPIPQGNFSlNPQMPLNASQQPNKQdst 139
                         689*************************************************************888887776333333333333333334 PP

                 TCP  89 ...............kaaksaakskksqksaa 105
                                        +      k++k++++a+
  Gorai.012G048500.1 140 ggfcrakskdivresS------KGSKRDEEAS 165
                         4677665553333220......2222222222 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5136930.11451109IPR017887Transcription factor TCP subgroup
PfamPF036344.6E-2951166IPR005333Transcription factor, TCP
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0031347Biological Processregulation of defense response
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0009507Cellular Componentchloroplast
Sequence ? help Back to Top
Protein Sequence    Length: 310 aa     Download sequence    Send to blast
MIPSSEEAGS PIQEGKEDES SNKVRKGAST SSPLLRLKDP RIVRVSRAFG GKDRHSKVFT  60
VRGLRDRRVR LSVPTAIQLY DLQDRLGLNQ PSKVVDWLLN EAKHEIEELP PLPIPQGNFS  120
LNPQMPLNAS QQPNKQDSTG GFCRAKSKDI VRESSKGSKR DEEASEGHQV QTDYGLQRSN  180
HSPMPALSNN AVSMPMPMPM PYGSYYHFEP SNFPLPHLGS HGFVAPQTEE VHNFNVVPLS  240
STLSLSSGSQ NHFQMLSSGA QNPFANPPQY SITQPDLRSF HLSIAPRLLP HSLNINGSQP  300
GKEDEFPSK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A1e-1856110155Putative transcription factor PCF6
5zkt_B1e-1856110155Putative transcription factor PCF6
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during ovule development (PubMed:25378179). {ECO:0000269|PubMed:25378179}.
UniprotTISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, buds, flowers and immature siliques, and, to a lower extent, in roots. {ECO:0000269|PubMed:11161017, 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). Binds to the 3'-ACC-5' repeats in the light-responsive promoter (LRP) of psbD, and activates its transcription. Participates in ovule develpment (PubMed:25378179). {ECO:0000269|PubMed:11161017, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00326DAPTransfer from AT3G02150Download
Motif logo
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_012460346.10.0PREDICTED: transcription factor TCP5
SwissprotQ9S7W52e-45TCP13_ARATH; Transcription factor TCP13
TrEMBLA0A0D2TIP90.0A0A0D2TIP9_GOSRA; Uncharacterized protein
STRINGGorai.012G048500.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM91342637
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02150.12e-38plastid transcription factor 1
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. 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]
  3. Yamburenko MV,Zubo YO,Börner T
    Abscisic acid affects transcription of chloroplast genes via protein phosphatase 2C-dependent activation of nuclear genes: repression by guanosine-3'-5'-bisdiphosphate and activation by sigma factor 5.
    Plant J., 2015. 82(6): p. 1030-41
    [PMID:25976841]
  4. 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]