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.007G205300.3
Common NameB456_007G205300, LOC105803823
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: 475aa    MW: 50016.4 Da    PI: 8.4398
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.007G205300.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.31.3e-056183123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        ++C++C+k F r  nL+ H r H
  Gorai.007G205300.3 61 FVCEICNKGFQRDQNLQLHRRGH 83
                        89*******************88 PP
2zf-C2H211.30.0011137159123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+ k H + +
  Gorai.007G205300.3 137 WKCDKCSKKYAVQSDWKAHSKIC 159
                         58*****************9876 PP
3zf-C2H211.70.00081167185523
                         TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   5 dCgksFsrksnLkrHirtH 23 
                         dCg++Fsr++++ +H   +
  Gorai.007G205300.3 167 DCGTVFSRRDSFITHRAFC 185
                         9**************8765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.5E-56083IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.97E-66083No hitNo description
SMARTSM003550.0176183IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.9496183IPR007087Zinc finger, C2H2
PfamPF121717.5E-56183IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.1E-4125158IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.97E-6132157No hitNo description
SMARTSM00355150137157IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009937Biological Processregulation of gibberellic acid mediated signaling pathway
GO:0010029Biological Processregulation of seed germination
GO:0010431Biological Processseed maturation
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 475 aa     Download sequence    Send to blast
MPVDLDNSST ASGEASVTSS GNQNSLPKST AKKKRNLPGM PDPDAEVIAL SPRTLLATNR  60
FVCEICNKGF QRDQNLQLHR RGHNLPWKLR QRSSKEVKKR VYVCPEITCV HHHPSRALGD  120
LTGIKKHFCR KHGEKKWKCD KCSKKYAVQS DWKAHSKICG TREYKCDCGT VFSRRDSFIT  180
HRAFCDVLAE ERAKAQTQPQ PQNQNQTATK ESDPKPQTTD CSPPSAAAPV SVSAPESGKV  240
PAPAPAVPQL TSVISSSALP IQSSELPENP SPIMEESLAP APAAAPTGQP DCLTDLAPSP  300
SIEPISLCLS TNHGSSIFGT SGQEHRQYAP PPQPAMSATA LLQKAAQMGA TATNASLLHG  360
LGIASLSSSS AQQDNLQWGQ RQAEPENTSV VAGLGLGLPR DGSSGLKELM MGTPVFGPKQ  420
ATLDFLGLGM AAGGSPNGGL SALITSIGGE LDVVAAATSF GGGDFTSKDI GRSS*
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 -- 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00592DAPTransfer from AT5G66730Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ9083091e-166DQ908309.1 Gossypium hirsutum clone LIB5327-031-A1-N1-D7_Gh370 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012491682.10.0PREDICTED: protein indeterminate-domain 2-like isoform X2
SwissprotQ9LVQ70.0IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLA0A0D2QWL40.0A0A0D2QWL4_GOSRA; Uncharacterized protein
STRINGevm.model.supercontig_158.10.0(Carica papaya)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G66730.11e-156C2H2-like zinc finger protein
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]