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.5KG161100.1.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: 140aa    MW: 15284.1 Da    PI: 8.9602
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG161100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH222.9e-076685625
                         -SGGGGTS--TTTTT-SS-S CS
              zf-CCCH  6 CrffartGtCkyGdrCkFaH 25
                         C++f rtGtCkyGd C++ H
  Pavir.5KG161100.1.p 66 CHHFVRTGTCKYGDPCRYFH 85
                         *****************988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004513.2E-6338IPR003604Zinc finger, U1-type
SuperFamilySSF576671.52E-15447No hitNo description
PfamPF062206.0E-11537IPR013085Zinc finger, U1-C type
PROSITE profilePS5010312.7936088IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.75E-66485IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.104.3E-56585IPR000571Zinc finger, CCCH-type
PfamPF006423.3E-56586IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 140 aa     Download sequence    Send to blast
MPLGRYYCDY CDKQFQDTPA ARKRHLEGAQ HQRARALWYD SVRPQDRHGG ASSLLLPDGT  60
LAKGVCHHFV RTGTCKYGDP CRYFHLKPYD ANPSLAAPGP GPGAMVQQSN FLGSQPNFVG  120
YQAAERNSFS GNVLGAHTS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.30550.0callus| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG161100.1.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
GenBankEU9445351e-109EU944535.1 Zea mays clone 221714 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815211.14e-90zinc finger CCCH domain-containing protein 3
SwissprotQ0JP118e-60C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBLA0A2S3HWR61e-88A0A2S3HWR6_9POAL; Uncharacterized protein
TrEMBLA0A2T7DPK11e-88A0A2T7DPK1_9POAL; Uncharacterized protein
STRINGPavir.Ea00890.1.p2e-99(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP126172326
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G26749.14e-26C3H 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]