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.J660800.1.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: 373aa    MW: 40638 Da    PI: 7.9335
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J660800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.42.7e-094364526
                       --SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                       +C+ f+++G C+ Gd+C +aHg
  Pavir.J660800.1.p 43 PCPEFRKGGACRKGDNCEYAHG 64
                       8********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902292.35E-53768IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.4413866IPR000571Zinc finger, CCCH-type
SMARTSM003564.2E-63865IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-64364IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.9E-54366IPR000571Zinc finger, CCCH-type
PROSITE profilePS501036.6437498IPR000571Zinc finger, CCCH-type
SMARTSM00356897497IPR000571Zinc 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: 373 aa     Download sequence    Send to blast
MYSFKVKPCS RAYSHDWTEC PFVHPGENAR RRDPRRYSYS CVPCPEFRKG GACRKGDNCE  60
YAHGVFECWL HPAQYRTRLC KDEVGCARRI CFFAHKPEEL RAVNPSAVSV GMQPAVSSPP  120
NGLDMGMLHP AWPSSPASRI KTALAGRELD FDLELLALDQ YQQKLFDKVS SPRASWGSAG  180
GIGSPLPTAA PARTMPDYTD LLGSVDPAML SQLHALSLKQ DGDMPVYNSM ADTQLHMPTS  240
PLVSANTAFG LDHSMAKAIM SSRASAFAKR SQSFIDRGGR APATRSLMSQ ATTGAPSMLS  300
DWGSPDGKLD WGVQGDELHK FRKSASFAFR GQSPAPVPAP TEPDVSWVNS LVKDGHAGDI  360
FAQWPEQEQM VA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.111230.0root
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.J660800.1.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
GenBankFP0969790.0FP096979.1 Phyllostachys edulis cDNA clone: bphyem206f17, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025807185.10.0zinc finger CCCH domain-containing protein 33-like
SwissprotQ688R30.0C3H33_ORYSJ; Zinc finger CCCH domain-containing protein 33
TrEMBLA0A3L6SYD40.0A0A3L6SYD4_PANMI; Zinc finger CCCH domain-containing protein 33
STRINGPavir.J29640.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP60132133
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G58620.14e-97C3H 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]