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.1NG545800.1.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: 659aa    MW: 72749.7 Da    PI: 4.5655
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG545800.1.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-07110132427
                          ---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH   4 elCrffartGtCkyGdrCkFaHgp 27 
                          ++C +f++ G C  GdrC F+Hgp
  Pavir.1NG545800.1.p 110 VPCYYFQK-GMCAKGDRCAFSHGP 132
                          69******.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.6951443IPR000571Zinc finger, CCCH-type
SMARTSM003566.7E-41442IPR000571Zinc finger, CCCH-type
PfamPF156638.1E-121569No hitNo description
PROSITE profilePS5010311.0284571IPR000571Zinc finger, CCCH-type
SMARTSM003562.54770IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.037106133IPR000571Zinc finger, CCCH-type
SMARTSM003566.1E-6107132IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.7E-5109131IPR000571Zinc finger, CCCH-type
PfamPF146080.27111131No hitNo description
Gene3DG3DSA:4.10.1000.101.6E-4111132IPR000571Zinc 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: 659 aa     Download sequence    Send to blast
MDSAARPDEE EARRRRSTDC IYFLASPLTC KKGSECEFRH SDAARMNPRD CWYWFNGNCA  60
NPKCSFRHPP LDNLLGAPPT PTTPRAPQQP APQVSVPAQA HGSVPAKQGV PCYYFQKGMC  120
AKGDRCAFSH GPQPAGTPQP PPAAKIFTPA LQPNSQLKNS WTKPNSSGQQ NTLAGIQDKS  180
KFSTHDTKPV QKQHVTSRVD HSSRTYQNHS NSYVQSGTTK HYQPQPSVQD GLTENGMEAG  240
EFVREPYAGS GVLVAGVNDD SEQSFKGNHS SYHHHTERSY RSSAERLSSD KRISEREPMP  300
AVITGSSDLR HRLLKQRRLN NNLRSIEAPD MNDACVEGER NDQHRWRGEE HDDPLPRSRL  360
CDRIRLPDAT SFDRHGSRSE ELDRGPRGRL SPPKHLDLRG KLLERLKVRS AEEIPVNSVK  420
SSVVKASSGE DAESLNFAGP KSLAELKARK GGGSSSREEA IIKGVGLSRV TSGTISSRET  480
APFEGPKPLS AILKRKREVA SEDAAAHFGS IQEEDNAAGV DEESQILADD TVEEENMEGN  540
TAADEEGEEE AFHPEDDVAY DDNTDEATGQ DLEEHQDVET AGEDYDYEAP DTNTAAGQEL  600
EEHQDVEAAA EDYDYEAADV NAEEDNEYQE YQDDDDLEDD DDDDDDDDFA RKVGVMIS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.268760.0callus
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG545800.1.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
GenBankEU9753422e-82EU975342.1 Zea mays clone 488116 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_025805705.10.0zinc finger CCCH domain-containing protein 19-like
SwissprotQ6K9770.0C3H19_ORYSJ; Zinc finger CCCH domain-containing protein 19
TrEMBLA0A2T7FEB90.0A0A2T7FEB9_9POAL; Uncharacterized protein
STRINGPavir.Aa00025.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP130972123
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]