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 Tp57577_TGAC_v2_mRNA1987
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family C2H2
Protein Properties Length: 1491aa    MW: 165890 Da    PI: 6.5923
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA1987genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.70.0001913781403123
                                EEET..TTTEEESSHHHHHHHHHH.T CS
                   zf-C2H2    1 ykCp..dCgksFsrksnLkrHirt.H 23  
                                +kC   +C++sF++k +L+ H r+ +
  Tp57577_TGAC_v2_mRNA1987 1378 HKCDidNCHMSFTTKAELQLHKRNmC 1403
                                799999****************9877 PP
2zf-C2H213.10.0002914321456123
                                EEET..TTTEEESSHHHHHHHHHHT CS
                   zf-C2H2    1 ykCp..dCgksFsrksnLkrHirtH 23  
                                ++Cp   C+k+F+    ++ Hir+H
  Tp57577_TGAC_v2_mRNA1987 1432 FECPwkGCSKCFKWAWAMTEHIRVH 1456
                                89*********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005451.1E-141555IPR003349JmjN domain
PROSITE profilePS5118313.8271657IPR003349JmjN domain
PfamPF023757.0E-151750IPR003349JmjN domain
SMARTSM005584.6E-43290459IPR003347JmjC domain
PROSITE profilePS5118434.79290459IPR003347JmjC domain
SuperFamilySSF511979.61E-26291455No hitNo description
PfamPF023734.0E-35324441IPR003347JmjC domain
Gene3DG3DSA:3.30.160.601.6E-513721400IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.18213781407IPR007087Zinc finger, C2H2
SMARTSM003558.913781400IPR015880Zinc finger, C2H2-like
SMARTSM003551714011426IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.9E-414021431IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.43E-1514131468No hitNo description
Gene3DG3DSA:3.30.160.607.7E-1314321456IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003556.5E-514321456IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015714.08714321461IPR007087Zinc finger, C2H2
PROSITE patternPS00028014341456IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.9E-1114571485IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.4914621488IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.74614621490IPR007087Zinc finger, C2H2
PROSITE patternPS00028014641488IPR007087Zinc 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: 1491 aa     Download sequence    Send to blast
MGNVEIPNWL EGLPLAPEFR PTDTEFSDPI AYISKIEKEA SNFGICKIIP PLPKPSKKYV  60
FSNLNKSLLK RPELGLDNSS LGVGNSWKMG ADGSNSGVSR AVFTTRQQEV GQSVKKTKGG  120
VQKPLSCVHK QVWQSGEVYT LEQFEAKSKS FARSILGTSK DVSPLVVEAM FWKAASEKPI  180
YVEYANDVPG SAFGESQGQF YHSHRRQRKR TYYKSRVDSS VCKETEMGGV KDTQNDESNG  240
VTAPSNGESC LEMSKSATTM STSTPIEVSQ SSKEKSSDAD NDLQGTAGWK LSNSPWNLQV  300
VARASGSLTR FMPDDIPGVT SPMIYIGMLF SWFAWHVEDH ELHSLNFHHT GSSKTWYSVP  360
GNYAFAFEEV IRTEGYGGDI DQLAALKLLG EKTTLLSPEV VVASGIPCCR LVQNPGEFVV  420
TFPRAYHVGF SHGFNCGEAA NLATPRWLGI AKEAAVRRAT MNHLPMLSHQ QLLYLLTMSF  480
ISSVPRTLLP GVRSSRLRDR QKEEREILVK RAFIEDMLQE NKLLSILLGK EATKQVVLWN  540
ADLLPDSGKY RRLPDLASTS GTYMADMSND NISSADKSSH CLLDEMSLYM ENLSDLYVGC  600
DELPCHFQTD SGALACVGCG ILGFPFMTLI QPTEKSIMEL LPDNHHLVKD SSLISVASLH  660
SAVSRDLSVS ELVLAKDSQN QSLNKCNKYW NTSNKFLKPR IFCLEHAVQI VEMLQSKGGA  720
NVLIICHSDY PKIKAHARAV AEDIQSAFDH NEVPMDIASP ENLALIDLAI DGEEELNEFE  780
DWTSKLGLNL RFCVNNINKS SCKQFPLTLI LGMQFYDKRP GLSLNWHSRK TRSKRSNHLA  840
QAKPDSIQRK TDDPLHGRID GSTAKKKLIQ YSRRKFKSKQ SCFSEASTVR ESHEKLKNAS  900
GVLSGDHDTC VSKNELDTDN FRSNCALSRG SASAAMSPTH PEIQNAEAPI CPSLNTSVSE  960
ICGKESQDCQ DKGYSGSLTY GIDGNVDVFG SNQITEAIVI DSKCNSLDLD GEGYHEHQSA  1020
CKSNSNGEAV LSTSLVNQPA LATADGSFES PKNNDAEEKV SHSMSLKETT EGESKPLNEM  1080
DRVPLNDDKA ISEHTPIADV CEIPRELYDA ADFHNTVCLD ATMQQEQQVG KGGDKEIIQS  1140
THISEKELCE STSGEYAKEL HDEVILESAK QIQIQNENRT NEEPVSSDIT KGVSVTIPEI  1200
GCSEVLAETC PKEDSCIQFI SNAEKEMEIQ PICRSDEELS VSIQECSKTE KKTRGRENEY  1260
GSEVDLSQDN GELESYDLTT TVPRSNAEKK KKRKMEHMAM DQFEFNDFIR SPCERLRPRT  1320
GKIACATTGK TGGDISQQKE ENPVAKRTRK PPEASVPHKD KKASVPHKDK KVDVKKPHKC  1380
DIDNCHMSFT TKAELQLHKR NMCPEKGCGK RKFRSHKYTL IHQRVHEDDR PFECPWKGCS  1440
KCFKWAWAMT EHIRVHTGEK PYQCKVEGCD LSFRFISDFS RHRRKTGHYV *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6ip0_A2e-56274473142346Transcription factor jumonji (Jmj) family protein
6ip4_A2e-56274473142346Arabidopsis JMJ13
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
112881293KKKKRK
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA1987
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1449280.0AC144928.17 Medicago truncatula clone mth2-8a18, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003591873.20.0probable lysine-specific demethylase ELF6
SwissprotQ6BDA00.0ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBLG7I5110.0G7I511_MEDTR; Lysine-specific demethylase ELF6-like protein, putative
STRINGGLYMA20G32160.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF80313034
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]