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.1NG017300.1.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: 438aa    MW: 50166.5 Da    PI: 9.0209
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG017300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.12.6e-073356126
                         --S---SGGGGTS--TTTTT-SS-SS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                         ykt+lC  ++r G C++ d+C+FaHg
  Pavir.1NG017300.1.p 33 YKTKLCALWQR-GGCSR-DTCSFAHG 56
                         9**********.*****.*******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.108.9E-122762IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.04E-53161IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.5823258IPR000571Zinc finger, CCCH-type
PfamPF006423.4E-53356IPR000571Zinc 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: 438 aa     Download sequence    Send to blast
MRDRSVDREF PSRERGDRPP PGMLGPPRRG PAYKTKLCAL WQRGGCSRDT CSFAHGHAEL  60
RRFPGSRTSF PPRAGRRDYR GGDFRERFDR RRSPHRRHSP DRDSRDHRPL HEQRPTSQER  120
ESSYSRSPSR KSDRRHEKNP DDGETNSSRS LSVSDKNDDR KKETLSVDDK EDQEIQLKQI  180
RQDMELLRED KSNLEIILDE KNAEVRKISS RVNDLDLQIR KEKEECHRMT SKIKKFIKAH  240
ARFLKAQEEL KRSQARFERL GDLLASDILK RGANEEVSSV NVDEDPNGPY ERSPNAATTK  300
KRSIPYSTSE EAKAVKKRRD RDSEFDKSSK GTEPTKALYL KKKLWEDEKD KIGTSANTDK  360
VKDSPVKHVL PSTGMAAHAV DDLFEAVELE DRHGPINASV ENGAGDETRS PAMPSQPPPV  420
VNAYEQYEGD DEEVDVE*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1299318KKRSIPYSTSEEAKAVKKRR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.77581e-157callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG017300.1.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
GenBankBT0402400.0BT040240.1 Zea mays full-length cDNA clone ZM_BFc0072P19 mRNA, complete cds.
GenBankEU9620390.0EU962039.1 Zea mays clone 239776 zinc finger C-x8-C-x5-C-x3-H type family protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815366.10.0zinc finger CCCH domain-containing protein 13-like isoform X1
SwissprotQ6H7U20.0C3H13_ORYSJ; Zinc finger CCCH domain-containing protein 13
TrEMBLA0A2T8KU070.0A0A2T8KU07_9POAL; Uncharacterized protein
STRINGPavir.Aa03280.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP38822943
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G21810.12e-20C3H 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]