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 Pavir.3KG333100.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family C3H
Protein Properties Length: 272aa    MW: 29395.1 Da    PI: 5.2381
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG333100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.93e-07117142326
                          S---SGGGGTS...--TTTTT-SS-SS CS
              zf-CCCH   3 telCrffartG...tCkyGdrCkFaHg 26 
                           e+C++f+r      C++G  C+FaHg
  Pavir.3KG333100.1.p 117 GEPCPDFRR-RpgaACPRGTACPFAHG 142
                          589****99.558*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.723114144IPR000571Zinc finger, CCCH-type
SMARTSM003560.028114143IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.3E-5115146IPR000571Zinc finger, CCCH-type
PfamPF006426.1E-5118142IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.6E-4149180IPR000571Zinc finger, CCCH-type
SMARTSM0035625152175IPR000571Zinc 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: 272 aa     Download sequence    Send to blast
MVSREQHSHS YEHLVLDPAA LGGSACSWAE PPAGLEIIPP QLLAALGEYL SAGRGGGGDG  60
DAAEAEAEAE ADDEFMMYEF KVRRCARARS HDWTACPYAH PGEAARRRDP RRVAYAGEPC  120
PDFRRRPGAA CPRGTACPFA HGTFELWLHP SRYRTRPCRA GAACRRRVCF FAHAAAELRA  180
APKDDGGALS LSPKSTLASL WESPPVSPVE GRMRWLDAID EPSDADAEVE ELMLAMRELS  240
FRKAAASSAP VLPPVTEEDG PDLGWVSELV M*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.44790.0callus
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG333100.1.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
GenBankBT0676910.0BT067691.1 Zea mays full-length cDNA clone ZM_BFc0130E04 mRNA, complete cds.
GenBankEU9536020.0EU953602.1 Zea mays clone 1437892 CCCH transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021303637.11e-151zinc finger CCCH domain-containing protein 37-like
SwissprotQ65X921e-130C3H37_ORYSJ; Zinc finger CCCH domain-containing protein 37
TrEMBLA0A1Z5R4P21e-149A0A1Z5R4P2_SORBI; Uncharacterized protein
STRINGSi022958m1e-141(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP112091926
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03790.11e-35C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]