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.013G257100.1
Common NameB456_013G257100
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 E2F/DP
Protein Properties Length: 471aa    MW: 52083.3 Da    PI: 4.5653
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G257100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP76.72.3e-24157216771
             E2F_TDP   7 rlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                         +llt+kf++l++++e+gi++ln++a +L   +v  ++RRiYDi+NVLe+++liekk kn+i+wkg
  Gorai.013G257100.1 157 GLLTKKFINLIKQAEDGILDLNKAAGTL---EV--QKRRIYDITNVLEGIGLIEKKLKNRIQWKG 216
                         589*************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM013724.4E-27152216IPR003316E2F/DP family, winged-helix DNA-binding domain
Gene3DG3DSA:1.10.10.101.3E-24157218IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF023191.3E-21157216IPR003316E2F/DP family, winged-helix DNA-binding domain
SuperFamilySSF467851.63E-14157217IPR011991Winged helix-turn-helix DNA-binding domain
CDDcd146602.39E-38227333No hitNo description
SuperFamilySSF1440741.39E-31228332No hitNo description
PfamPF164215.8E-33232331IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 471 aa     Download sequence    Send to blast
MSGSQAADQL LKQSLQQQQQ QNQQSLNRQL LFSMAPGDDF HRFALAEPRS IADQEAEAMV  60
VKSPLKRKSD VADREVESGE WTLPRGYNEV SSGLPQTPVS GKGGKAQKTS RLAKSSKFGP  120
QTPSNLGSPG NNLTPAGPCR YDSSLGIVFA PEYSFSGLLT KKFINLIKQA EDGILDLNKA  180
AGTLEVQKRR IYDITNVLEG IGLIEKKLKN RIQWKGLDVL RPGEVDENVA TLQAEVENLH  240
NQEHRLDTQI RNMQERLRDL SEDENNKKWL FVTEEDIKSL PCFQNEMLIA IKAPHGTTLD  300
VPDPDEDDDS LQRRYRIVLR SSIGPIDVYL VSQIEEKFEE IQGVGLPSNL PCTSGLDENP  360
AARMVTEESR DVETQGQYIN GMCLDHHVSQ DFVSGIMKIV PSDLDNDADY WLLSDPSVSI  420
TDIWRTESGI ELNNVDTLQY TGMAAGSTTQ PQTPPLNAAE VLPPGNSIGR *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A8e-23135217274PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Most abundant at the G1/S transition. Lower but constant level in the following phases. {ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543, ECO:0000269|PubMed:16514015}.
UniprotTISSUE SPECIFICITY: Expressed in proliferating cells and several differentiated tissues. Detected in inflorescence and shoot apical meristems, cotyledonary vascular tissues, leaf primordia, young leaves, base of trichomes, central cylinder and elongation zone of roots, lateral root primordia, flowers, pistils of immature flowers and pollen grains. {ECO:0000269|PubMed:16514015}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA cooperatively with DP proteins through the E2 recognition site, 5'-TTTC[CG]CGC-3' found in the promoter region of a number of genes whose products are involved in cell cycle regulation or in DNA replication. The binding of retinoblastoma-related proteins represses transactivation. Involved in the control of cell-cycle progression from G1 to S phase and from G2 to M phase. Stimulates cell proliferation and delays differentiation. Represses cell enlargement and endoreduplication in auxin-free conditions. {ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543, ECO:0000269|PubMed:11862494, ECO:0000269|PubMed:11891240, ECO:0000269|PubMed:12913157, ECO:0000269|PubMed:16055635, ECO:0000269|PubMed:16514015}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by light and by auxin. May be up-regulated by E2FA. {ECO:0000269|PubMed:16055635, ECO:0000269|PubMed:16514015, ECO:0000269|PubMed:18424613}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX6155775e-89JX615577.1 Gossypium hirsutum clone NBRI_GE59622 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012462321.10.0PREDICTED: transcription factor E2FB-like isoform X4
SwissprotQ9FV711e-153E2FB_ARATH; Transcription factor E2FB
TrEMBLA0A0D2SK860.0A0A0D2SK86_GOSRA; Uncharacterized protein
STRINGGorai.013G257100.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM80828121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G22220.21e-149E2F transcription factor 1
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  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. Wu M,Liu L,Hijazi H,Chan C
    A multi-layer inference approach to reconstruct condition-specific genes and their regulation.
    Bioinformatics, 2013. 29(12): p. 1541-52
    [PMID:23610368]
  4. Kobayashi K, et al.
    Transcriptional repression by MYB3R proteins regulates plant organ growth.
    EMBO J., 2015. 34(15): p. 1992-2007
    [PMID:26069325]