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 Araha.5904s0005.1.p
Organism
Arabidopsis halleri
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: 509aa    MW: 56070.1 Da    PI: 7.1198
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.5904s0005.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.21.6e-09150172326
                          S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                           ++C++far G+Ck G++C+F H+
  Araha.5904s0005.1.p 150 GVPCSYFAR-GFCKNGASCRFVHS 172
                          589******.*************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.352147174IPR000571Zinc finger, CCCH-type
SMARTSM003562.7E-5147173IPR000571Zinc finger, CCCH-type
PfamPF006429.6E-7151172IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.35E-5151172IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-5152173IPR000571Zinc finger, CCCH-type
SuperFamilySSF549282.67E-5254310IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3304.9E-4254306IPR012677Nucleotide-binding alpha-beta plait domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000166Molecular Functionnucleotide binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 509 aa     Download sequence    Send to blast
MDGYEATRIV LSRIQSLDPE NASKIMGLLL LQDHGEKEMI RLAFGPETLV HSVIVKAKKE  60
LGLMNCSRSP WSHQDELISP KNNRGSSLNP ASLPFYANGG RSSRDLTNDF ELMDDVNSRS  120
DFLGSVHARS GSCVLDGLGY GGDSDLGFGG VPCSYFARGF CKNGASCRFV HSDGGADLVG  180
SPSRIELLRS NSVPPRLAHH FMTRSSLPSF SPKAVNLQQN DVQRAAAALM IGDELQKLGR  240
WRPERIDLSA MAFQDVRIPY QQKRMFGFVT FVYPETVKSI LAKGNPHFVC DSRVLVKPYK  300
EKGKVPDKYR TNQTTERELS PTGLDSSPRD VLGGRGFYNN TQDVLWRSKF EEEILELQSR  360
RLMNLQLLDV KKHFQLNSPT NIHSPNPFSQ SLISPRPLSV IKREYDGGEK GKGSSKEGSD  420
DDTMNLPERL EDSLPDSPFA SPAHHLLLFA DSADNNGSDL WSPSSDNDDN STPSTLSDSF  480
NSFNCQMPRL PAIGMLPGRG GPTCRVGI*
Functional Description ? help Back to Top
Source Description
UniProtPossesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269|PubMed:18582464}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.5904s0005.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3167150.0AK316715.1 Arabidopsis thaliana AT3G51950 mRNA, complete cds, clone: RAFL07-73-F09.
GenBankAY0884840.0AY088484.1 Arabidopsis thaliana clone 7104 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020882550.10.0zinc finger CCCH domain-containing protein 46
RefseqXP_020882551.10.0zinc finger CCCH domain-containing protein 46
SwissprotQ9SV090.0C3H46_ARATH; Zinc finger CCCH domain-containing protein 46
TrEMBLD7LU050.0D7LU05_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.5__1545__AT3G51950.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM269734
Publications ? help Back to Top
  1. Schindler S, et al.
    Alternative splicing at NAGNAG acceptors in Arabidopsis thaliana SR and SR-related protein-coding genes.
    BMC Genomics, 2008. 9: p. 159
    [PMID:18402682]