PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gh_A12G1286
Organism
Gossypium hirsutum
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: 492aa    MW: 54294.7 Da    PI: 9.0418
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_A12G1286genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.74.4e-0595115323
                  ETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   3 CpdCgksFsrksnLkrHirtH 23 
                  C++Cgk F r  nL+ H r H
  Gh_A12G1286  95 CEICGKGFQRDQNLQLHRRGH 115
                  *******************88 PP
2zf-C2H212.80.00036169191123
                  EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                  +kC +C+k++  +s+ k H +t+
  Gh_A12G1286 169 WKCDKCSKRYAVQSDWKAHSKTC 191
                  58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.81E-692115No hitNo description
Gene3DG3DSA:3.30.160.604.3E-592115IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.48993115IPR007087Zinc finger, C2H2
SMARTSM003550.07693115IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028095115IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.3E-4157190IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.81E-6164189No hitNo description
SMARTSM00355140169189IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 492 aa     Download sequence    Send to blast
MTEESISDVF VINPIPGSNP PVAKKKRNLP GTPGKCLLFP PISNFSGDSL IVIFVNLMTK  60
CCLRFPHMIW VIADPEAEVI ALSPKTLMAT NRFLCEICGK GFQRDQNLQL HRRGHNLPWK  120
LKQRSTKEVR KRVYVCPEKT CVHHHPSRAL GDLTGIKKHF CRKHGEKKWK CDKCSKRYAV  180
QSDWKAHSKT CGTREYKCDC GTLFSSRRDS FITHRAFCDA LAEETARVNA ASSMHSNINH  240
HLIGNQIGPP MAQHFPPIFK QISSNDVTID QTRCGLSLWM GQASQFHDSI PKSLQEIHQF  300
GSVISGSIYS DLLVSTSNPP ASGYHLNWVL GNKVSSSHAE ELTSTSLPLN NVKENGAQLV  360
SVPSLFSTQK LHSHQPTSEN MSATALLQKA AQIGATSTDT SFLGSLGTKC SNSQIQDGNK  420
YSGLYVSNTP PTSFGSDLEN SANDISNLNQ LQMQPAKRQR LQNEDSSGGQ TRDFLGVGVL  480
PICHPSSING WT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-34165233370Zinc finger protein JACKDAW
5b3h_F6e-34165233370Zinc 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
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}.
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-142IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A1U8M7E00.0A0A1U8M7E0_GOSHI; zinc finger protein MAGPIE-like
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-145C2H2 family protein
Publications ? help Back to Top
  1. 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]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]