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.9NG627200.1.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: 395aa    MW: 42183.2 Da    PI: 6.9137
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG627200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.68e-07117137526
                          --SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                           C++f++ G Ck Gd C FaHg
  Pavir.9NG627200.1.p 117 ACPDFRK-GGCKSGDACEFAHG 137
                          7******.*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003563.1E-4112138IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.089113139IPR000571Zinc finger, CCCH-type
PfamPF006424.0E-5117137IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.7E-5117139IPR000571Zinc finger, CCCH-type
SMARTSM0035612147170IPR000571Zinc finger, CCCH-type
PROSITE profilePS501036.258147171IPR000571Zinc 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: 395 aa     Download sequence    Send to blast
MMMMGEGAHA PPWQQQQQPP ASAGMDGDDA SPYSLLAALR HYLPSNEAAA AAYDEDDEEA  60
ALAAVDAYAC DEFRMYEFKV RRCSRGRSHD WMDCPYAHPG EKARRRDPRR YHYSGTACPD  120
FRKGGCKSGD ACEFAHGVFE CWLHPARYRT QPCKDGTACR RRVCFFAHTP DQLRVLPPQQ  180
SSSSPRGAAP SPLAESYDGS PLRRQAFESY LTKTGIMSSS PTSTLVSPPR SPPSESPPMS  240
PDAAGALRRG SWPGVGSPVN EVLASLRQLR LGGGGSPRSA PSGGSFLAGY PFGSPKSPAA  300
LYSLPSPPTR PSPVTVTTPS GATVMTVERL NLGLIGDEEP VMERVESGRA LREKVFERLS  360
KEATVPNDTA AAANAEGAAP AAAPDVGWVS DLIN*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.490.0callus| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG627200.1.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
GenBankEU9692390.0EU969239.1 Zea mays clone 327364 hypothetical protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025808576.10.0zinc finger CCCH domain-containing protein 35-like
SwissprotQ6L4N40.0C3H35_ORYSJ; Zinc finger CCCH domain-containing protein 35
TrEMBLA0A368QDQ80.0A0A368QDQ8_SETIT; Uncharacterized protein
STRINGPavir.J04795.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP15783493
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G29190.17e-65C3H 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]