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 488510
Common NameARALYDRAFT_488510
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C3H
Protein Properties Length: 345aa    MW: 38249.9 Da    PI: 8.34
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
488510genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.32.3e-071336326
             S---SGGGGTS--TTTTT-SS-SS CS
  zf-CCCH  3 telCrffartGtCkyGdrCkFaHg 26
             ++ C ++ rtG C++G +C+F+H+
   488510 13 EPDCAYYIRTGLCRFGFTCRFNHP 36
             789********************8 PP
2zf-CCCH37.73.4e-125882327
             S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH  3 telCrffartGtCkyGdrCkFaHgp 27
             +++C f+++tGtCk+G +CkF+H++
   488510 58 QPECEFYLKTGTCKFGVTCKFHHPR 82
             799********************96 PP
3zf-CCCH37.93.1e-12104128327
              S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
              +  C++f+rtG+Ck+G++CkF+H++
   488510 104 EDDCSYFLRTGHCKFGGTCKFNHPQ 128
              578********************97 PP
4zf-CCCH37.44.4e-12213239127
              --S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
              +++++C+f+++tG Ck+G  CkF+H++
   488510 213 PGQPECQFYMKTGDCKFGTVCKFHHPR 239
              5789*********************96 PP
5zf-CCCH38.12.6e-12260285227
              -S---SGGGGTS--TTTTT-SS-SSS CS
  zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
              +++lC f++r+G+Ck+G++CkF H++
   488510 260 GEPLCVFYSRYGICKFGPSCKFDHPM 285
              789*********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.451037IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.7891038IPR000571Zinc finger, CCCH-type
PfamPF006422.8E-41336IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.84E-51438IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.2115583IPR000571Zinc finger, CCCH-type
SMARTSM003562.6E-55582IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-95882IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-65984IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.7E-46182IPR000571Zinc finger, CCCH-type
SMARTSM003563.8E-5101128IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.305101129IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-6102129IPR000571Zinc finger, CCCH-type
PfamPF006429.0E-10104128IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.0E-4107127IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.22212240IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-5212239IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-8214239IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.28E-6216241IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-4218240IPR000571Zinc finger, CCCH-type
SMARTSM003563.1E-7258285IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.915258286IPR000571Zinc finger, CCCH-type
PfamPF006424.1E-9260285IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-5261285IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.1E-4263283IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 345 aa     Download sequence    Send to blast
MGLDGSYPER HGEPDCAYYI RTGLCRFGFT CRFNHPHDRK LVIATARIKG EYPERIGQPE  60
CEFYLKTGTC KFGVTCKFHH PRNKAGNDGR VSVNVLGYPL RPNEDDCSYF LRTGHCKFGG  120
TCKFNHPQTQ STNLMVSLRG SPVYSALQPP TDGQQSYSWP RTSFVANPPR WQDPSSFSSG  180
SQGGLFSSGF HSGNSVPLGF YALPRENVFP ERPGQPECQF YMKTGDCKFG TVCKFHHPRD  240
RQTPAPDCAL SSVGLPLRQG EPLCVFYSRY GICKFGPSCK FDHPMRVFTY NNNDASPSPS  300
SSLHQETAIT TQLRNLLVSS SVEATPTTLP ETTSAKDTIV DAQH*
Cis-element ? help Back to Top
SourceLink
PlantRegMap488510
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0846340.0AY084634.1 Arabidopsis thaliana clone 113763 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020878456.10.0zinc finger CCCH domain-containing protein 57
SwissprotQ8L7N80.0C3H57_ARATH; Zinc finger CCCH domain-containing protein 57
TrEMBLD7M8580.0D7M858_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.6__1644__AT5G16540.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33892864
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G16540.10.0zinc finger nuclease 3
Publications ? help Back to Top
  1. Haas BJ, et al.
    Full-length messenger RNA sequences greatly improve genome annotation.
    Genome Biol., 2002. 3(6): p. RESEARCH0029
    [PMID:12093376]
  2. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Xie W, et al.
    Exploring potential new floral organ morphogenesis genes of Arabidopsis thaliana using systems biology approach.
    Front Plant Sci, 2015. 6: p. 829
    [PMID:26528302]