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.008G155300.1
Common NameB456_008G155300
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: 509aa    MW: 56277.2 Da    PI: 9.1012
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.008G155300.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.64.6e-05113133323
                         ETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   3 CpdCgksFsrksnLkrHirtH 23 
                         C++Cgk F r  nL+ H r H
  Gorai.008G155300.1 113 CEICGKGFQRDQNLQLHRRGH 133
                         *******************88 PP
2zf-C2H2120.00066187209123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+ k H +t+
  Gorai.008G155300.1 187 WKCDKCSKQYAVQSDWKAHSKTC 209
                         58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.27E-6110133No hitNo description
Gene3DG3DSA:3.30.160.604.5E-5110133IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.489111133IPR007087Zinc finger, C2H2
PROSITE patternPS000280113133IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.1E-4175208IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.27E-6182207No hitNo description
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: 509 aa     Download sequence    Send to blast
MTITAWQYKN YANKTEIIFG FPMLAEPNLI LELTEKMTEE SISDVFVINP IPGSNPPVAK  60
KKRNLPGTPV IFVNLMTKCC LRFPHMIWVI ADPEAEVIAL SPKTLMATNR FLCEICGKGF  120
QRDQNLQLHR RGHNLPWKLK QRSTKEVRKR VYVCPEKTCV HHHPSRALGD LTGIKKHFCR  180
KHGEKKWKCD KCSKQYAVQS DWKAHSKTCG TREYKCDCGT LFSRRDSFIT HRAFCDALAE  240
ETARVNAASS MHSNINHLMG NQIGPPMAQH FPPIFKPISS NNVTIDQTSC GLSLWMGQAS  300
QFHDSIPKSL QEIHQFGSVI SGSIYSDPLV SISNPPASGY HLNWVLGNKV SPSHAEELTS  360
TSLPLNNVKE NGARLVSVPS LFSTQKLHSH QTTSANMSAT ALLQKAAQIG ATSTDTSFLG  420
SLGTKCSISQ IQEGNKYSGL YVSNTPPTSF GSDLENSAND ISNLNQLQMQ PAKRQRLQNE  480
DSSGGQTRDF LGVGVLPICH PSSINGWT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C5e-36183250370Zinc finger protein JACKDAW
5b3h_F5e-36183250370Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT8896657e-79KT889665.1 Corchorus olitorius cultivar Sudan Green microsatellite JROm311 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016722680.10.0PREDICTED: zinc finger protein MAGPIE-like
SwissprotQ9ZWA61e-145IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A0D2PVM30.0A0A0D2PVM3_GOSRA; Uncharacterized protein
STRINGGorai.008G155300.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37102660
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-148C2H2 family 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. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]