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.003G016200.2
Common NameB456_003G016200, LOC105787552
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: 546aa    MW: 56272.2 Da    PI: 8.7986
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.003G016200.2genomeJGIView 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.003G016200.2 61 FVCEICNKGFQRDQNLQLHRRGH 83
                        89*******************88 PP
2zf-C2H211.10.0013137159123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+ k H + +
  Gorai.003G016200.2 137 WKCDKCSKKYAVQSDWKAHSKIC 159
                         58*****************9876 PP
3zf-C2H211.50.00096167185523
                         TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                         dCg++Fsr++++ +H   +
  Gorai.003G016200.2 167 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:3.30.160.607.1E-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: 546 aa     Download sequence    Send to blast
MPVEVDNSST VSGDASVSST GNQNPPPKSA VKKKRNLPGM PDPDAEVIAL SPTTLLATNR  60
FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QRSSKEVKKR VYVCPEPTCV HHDPSRALGD  120
LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DWKAHSKICG TREYKCDCGT VFSRRDSFIT  180
HRAFCDALAV ESAKTQTNPS SESDPKVQAA DSSPRRSPPA APPPVSAPSA ITSSDIRIQS  240
SDPRTVVEEA PTPAPAPAPP PAGLNGSSSS SVSLVSSGCS SSSSSSSVFS SLFTSTTVSA  300
SIHPPQPLAP APPLVGLNGS CSGSVSLVSS GASSSSSSGV FASLFASSTV SASIQPPQPP  360
ALTNLIQADL APSTSIEPIS LCLSTSHGSS IFGTTGQERR QHAPPLQPAM SATALLQKAA  420
QMGAAASNAS LLRGLGIVSS SAPQENLQWG QAQVDPDNAS IAAGLGLGLP CDGSSGLKEL  480
MMGTPVFGPK QTTLDFLGLG VAAGGNPNAS LSALITSIGG GFDATTAAAS FRGGDYTSKD  540
IGRSS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-32133197367Zinc finger protein JACKDAW
5b3h_F1e-32133197367Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.30141e-163flower|seedling| flowering
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO487926691e-163
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_012469452.10.0PREDICTED: protein indeterminate-domain 2-like isoform X2
SwissprotQ9LVQ70.0IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLA0A0D2NUZ00.0A0A0D2NUZ0_GOSRA; Uncharacterized protein
STRINGGorai.003G016200.10.0(Gossypium raimondii)
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]