PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.J620200.1.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: 399aa    MW: 42555.6 Da    PI: 6.9139
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J620200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH26.61e-08117137526
                        --SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                         C++f++ G Ck+Gd C FaHg
  Pavir.J620200.1.p 117 ACPDFRK-GGCKRGDACEFAHG 137
                        7******.*************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501036.0869101IPR000571Zinc finger, CCCH-type
SMARTSM003562.3E-5112138IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.159113139IPR000571Zinc finger, CCCH-type
PfamPF006427.6E-7117137IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.7E-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:0006355Biological Processregulation of transcription, DNA-templated
GO:0005886Cellular Componentplasma membrane
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 399 aa     Download sequence    Send to blast
MMMMGEGAHA PPWQQQQQPA ASAGMVDGDD ASPYSLLVAL RHFLPSNEAA AAAYDEDDEE  60
ALAAVDAYAC DEFRMYEFKV RRCSRGRSHD WTDCPYAHPG EKARRRDPRR YHYSGTACPD  120
FRKGGCKRGD ACEFAHGVFE CWLHPSRYRT QPCKDGTACR RRVCFFAHTP DQLRVLPPQQ  180
SSASPRGAGA APSPLAESYD GSPLRRQAFE SYLTKTGIMS SSPTSTLVSP PRSPPSESPP  240
MSPDAAAGAL RRGSWPGVGS PVNEVLASLR QLRLGGGGSP RSAPSGGSFL AGYPFGSPKS  300
PAALYSLPST PTRPAPVTVT TPSGATVMTV ERLNLGLIIG DEEPVMERVE SGRALREMVF  360
ERLSKEATVP NDAAASANAE GAAPTAAPDV GWVSDLIN*
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.J620200.1.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_004960911.10.0zinc finger CCCH domain-containing protein 35
SwissprotQ6L4N40.0C3H35_ORYSJ; Zinc finger CCCH domain-containing protein 35
TrEMBLA0A1E5VKC20.0A0A1E5VKC2_9POAL; Zinc finger CCCH domain-containing protein 35
STRINGPavir.J09277.1.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
AT2G25900.29e-69C3H 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]