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 Ciclev10030491m
Common NameCICLE_v10030491mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family C2H2
Protein Properties Length: 1615aa    MW: 179152 Da    PI: 6.3116
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10030491mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.40.00115231546223
                       EET..TTTEEESSHHHHHHHHHHT CS
          zf-C2H2    2 kCp..dCgksFsrksnLkrHirtH 23  
                       +Cp   Cgk+Fs++ +   H+r+H
  Ciclev10030491m 1523 RCPheGCGKRFSSHKYAIIHQRVH 1546
                       69999*****************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.5E-152060IPR003349JmjN domain
PROSITE profilePS5118314.1322162IPR003349JmjN domain
PfamPF023758.4E-162255IPR003349JmjN domain
SMARTSM005587.9E-47296465IPR003347JmjC domain
SuperFamilySSF511979.06E-27296460No hitNo description
PROSITE profilePS5118434.552299465IPR003347JmjC domain
PfamPF023733.9E-37329448IPR003347JmjC domain
SMARTSM003551814991521IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.44515221551IPR007087Zinc finger, C2H2
SuperFamilySSF576671.82E-615221559No hitNo description
SMARTSM003550.04615221546IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.5E-615231550IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS00028015241546IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.3E-1015511576IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.001615521576IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.94615521581IPR007087Zinc finger, C2H2
PROSITE patternPS00028015541576IPR007087Zinc finger, C2H2
SuperFamilySSF576673.0E-1015621605No hitNo description
Gene3DG3DSA:3.30.160.601.2E-1115771605IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.49415821608IPR007087Zinc finger, C2H2
SMARTSM003550.7415821608IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028015841608IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
GO:0048579Biological Processnegative regulation of long-day photoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 1615 aa     Download sequence    Send to blast
MGNNSNNNVE IPKWLQGLPL APVFYPTDTE FADPIAYISR IEKEASAFGI CKIVPPLPKP  60
SKKYVFGNLN KSLSKCSELG SDVNLPDAGT VATVGCCERG NEGEARAVFT TRHQELGQSV  120
KRIKGVDNKD NLQLGAQKQV WQSGEVYTLE QFESKSKAFA RSLLSVIKEV SPLVIEALFW  180
KAASEKPVYV EYANDVPGSG FGEPEGQFRY FHRRRRKVTS WKSYRNRGKA DEKNIELESA  240
RNCHNDQITH SCDKNDLETP TSSTPSSTLP FDENSRSSRR KSVTGSNDVE GTAGWKLSNS  300
PWNLQVISRS PGSLTRFMPD DIPGVTSPMV YIGMLFSWFA WHVEDHELHS MNFLHTGAPK  360
TWYAIPGDYA FTFEEVIRNE AYGGDIDRLA ALSLLGEKTT LISPEVIAAS GIPCCRLVQN  420
PGEFVVTFPR AYHAGFSHGF NCGEAANFGT PQWLMVAKEA AVRRAAMNYL PMLSHQQLLY  480
LLTMSFISRV PRSLLPGARS SRLRDRQKEE RELLVKKAFV EDILKENNIL SVLLGRQSTF  540
NAVLWNADLL PCQSKESQMP SANETVSTTP GETVPNNPYE KHNDHNNLLD EMNVYMEALN  600
DPYMGDDDIS RDFHIDSGAL ACVACGILGF PFMSVVQLSE RASIELLADL VKEGPGVSEL  660
KNTHHHTNLD GSVKSSVSDD LSLVPDISLL QKDLSVPSIT KSSRIWNTSN KYLRPRIFCL  720
EHAAQIEEIL QSKGGAEILV ICHSDYQKIK AHAAAVAEEI GSPFNYIDVP LDAASEEDLH  780
LIDLAIDDGE LDECREDWTS KLGINLRHCV KVRKNSPSMR VQHALSLGDL FSEKSLSSDF  840
SKIKWQFRRS RSKIKLYGRA HSKPCQNIEI KKDEVTGRKL DGATVKKEEK LIQYSRRKFK  900
QKPDLSTGAC GDQVHPRELL PEVSAATCDH LDGHNRSDFE INPDGTGNSG SISAGSIHSP  960
IGMSEGLHDI PVREATSNLS LNYSPSRVAD SLATATLVVD SIVQNDTESM KELNIEGDIF  1020
HMATCKSAEM QQNSGTDVTS EETEISHHTV ASNEGSIIMR SDQITESMTI KNEKCNLASE  1080
GHCRKVADKD VLMIEVSGLA NSASFRVASS PLRSLDAQIE NLAPDNSCMI SEACDHLISD  1140
NEVRQNVQST NGGNDVEPIS CDHKLIDEPP ASTGESCEDM REISTAESLQ DNLQHERNIG  1200
NGSNEELVSS SVTMMIQPTS APMEISEVPS KECAAADLLN VGTKQKLISS CVSRMEVDQP  1260
SPLKVGGCSE VPIEICTKED SGADMTLDPR TRLQNHTTAE AIMDELVCNS SAQLEENERI  1320
PTSIAACSEE SNGIFAEEKM DFEMTIGTQT KNAASEEPKP TSLIPIDQPI PAVIRKYSRT  1380
RRESYSAEKF CNGNEAYSSK DNKERGCNEP NLEDPSSSAG KGRKRNRELE RLTENKLNGS  1440
GFIRSPCEGL RSRAGKDAAN TSEVDIRKIA EKRATKTMRN RESVPAPCQD KKKILKGHHR  1500
CDLDGCRMSF ETKRELSLHK RNRCPHEGCG KRFSSHKYAI IHQRVHDDER PLKCPWKGCS  1560
MSFKWAWART EHIRVHTGER PYKCKFEGCG LSFRFVSDIS RHRRKTGHYE NLSA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A5e-58263479119346Transcription factor jumonji (Jmj) family protein
6ip4_A5e-58263479119346Arabidopsis JMJ13
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed at low levels in cotyledons and leaves. Detected in inflorescences, stems, roots and siliques but not in shoot apical meristems or root tips. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18713399}.
Functional Description ? help Back to Top
Source Description
UniProtActs probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269|PubMed:15377760, ECO:0000269|PubMed:18467490, ECO:0000269|PubMed:19946624}.
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_006436450.10.0probable lysine-specific demethylase ELF6
RefseqXP_006485645.10.0probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLV4TDP10.0V4TDP1_9ROSI; Uncharacterized protein
STRINGXP_006485645.10.0(Citrus sinensis)
STRINGXP_006436450.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM115202731
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G04240.10.0C2H2 family protein
Publications ? help Back to Top
  1. Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C
    Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A.
    PLoS ONE, 2013. 8(7): p. e67987
    [PMID:23976921]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Crevillén P, et al.
    Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state.
    Nature, 2014. 515(7528): p. 587-90
    [PMID:25219852]
  4. Yang H,Howard M,Dean C
    Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74
    [PMID:27482092]