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.003G016300.1
Common NameB456_003G016300, LOC105787551
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 C2H2
Protein Properties Length: 551aa    MW: 56518.9 Da    PI: 8.5826
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G016300.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.11.6e-056183123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        ++C++C+k F r  nL+ H r H
  Gorai.003G016300.1 61 FVCEICNKGFQRDQNLQLHRRGH 83
                        89*******************88 PP
2zf-C2H211.10.0013137159123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+ k H + +
  Gorai.003G016300.1 137 WKCDKCSKKYAVQSDWKAHSKIC 159
                         58*****************9876 PP
3zf-C2H211.40.00097167185523
                         TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                         dCg++Fsr++++ +H   +
  Gorai.003G016300.1 167 DCGTVFSRRDSFITHRAFC 185
                         9**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576674.56E-76083No hitNo description
Gene3DG3DSA:3.30.160.601.8E-56083IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0176183IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9496183IPR007087Zinc finger, C2H2
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
SMARTSM00355190102132IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.2E-4125158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.56E-7132157No hitNo description
SMARTSM00355150137157IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 551 aa     Download sequence    Send to blast
MPVEVDNSST VSGNASVSST GNQSPPPKST VKKKRNLPGM PDPDAEVIAL SPTTLLATNR  60
FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QRSSKEVKKK VYVCPEPTCV HHDPSRALGD  120
LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DWKAHSKICG TREYKCDCGT VFSRRDSFIT  180
HRAFCDALAV ESAKTQTNLS SEPDPKVQAA DSLPPPASPP VSAPSAVTFS DMPIQSSVLA  240
EVPSIIVEKA AAPAPAPAPA PALAPAPPPA SLNGSCSTSV SLISSGCSSS SGVFSSLFTS  300
STVSASIRPP QPTAPAPPSA GLNGSCSGCI SLVSSGASNS SSSGVFASLF ASSTVSASIQ  360
PPQPPPLTNL IRPDLAPSAS IEPISLCLST SHGSSIFGTA GQEHRQHAPS LQPAMSATAL  420
LQKAAQMGAA ASNASLLRGL GIVSSSAPQE NLQWGQAQVD PDNASIAAGV GLGLPCDGSS  480
GLKELMMGTP VFGPKQTTLD FLGLGVAAGG NPTAGLSALI TSIGGGFDAA TAAASFRGGD  540
YTDKDIGRSS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-33133197367Zinc finger protein JACKDAW
5b3h_F6e-33133197367Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.30141e-111flower|seedling| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO487926691e-111
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269|PubMed:21571950}.
UniprotTISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269|PubMed:21571950}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012469449.10.0PREDICTED: protein indeterminate-domain 2-like
RefseqXP_012469450.10.0PREDICTED: protein indeterminate-domain 2-like
SwissprotQ9LVQ71e-176IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLA0A0D2QEE10.0A0A0D2QEE1_GOSRA; Uncharacterized protein
STRINGGorai.003G016300.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G50700.11e-110indeterminate(ID)-domain 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. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]