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.J672800.1.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: 302aa    MW: 31329.8 Da    PI: 10.0292
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J672800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.96.5e-073559226
                       -S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                       k ++C  f+ t  C++G++C+F H 
  Pavir.J672800.1.p 35 KSKPCTKFFSTAGCPFGASCHFLHN 59
                       7789********************7 PP
2zf-CCCH21.15.5e-07101126227
                        -S---SGGGGTS--TTTTT-SS-SSS CS
            zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHgp 27 
                        kt+ C+ +     Ck G++C+FaHg+
  Pavir.J672800.1.p 101 KTRMCNKYNTAEGCKWGSKCHFAHGE 126
                        9***********************96 PP
3zf-CCCH37.53.9e-12267292127
                        --S---SGGGGTS--TTTTT-SS-SSS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                        +kt+lC +f++ G C +GdrC+FaHg+
  Pavir.J672800.1.p 267 FKTKLCENFSK-GSCTFGDRCHFAHGE 292
                        69*********.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.33360IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.9153361IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.76E-63461IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.0E-83559IPR000571Zinc finger, CCCH-type
PfamPF006423.5E-53559IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-1495131IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.27E-898130IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.8599127IPR000571Zinc finger, CCCH-type
SMARTSM003562.399126IPR000571Zinc finger, CCCH-type
SuperFamilySSF547913.94E-14168240IPR004088K Homology domain, type 1
SMARTSM003223.8E-10170240IPR004087K Homology domain
PROSITE profilePS5008414.802171235IPR004088K Homology domain, type 1
Gene3DG3DSA:3.30.1370.102.9E-15171239IPR004088K Homology domain, type 1
CDDcd001053.41E-13173235No hitNo description
PfamPF000134.1E-11173236IPR004088K Homology domain, type 1
Gene3DG3DSA:4.10.1000.104.6E-17264298IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010317.084266293IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.02E-9266297IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-7266292IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-9267292IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 302 aa     Download sequence    Send to blast
MDAGRKRAVP EGANGAGGPK RARELETTQM GVGSKSKPCT KFFSTAGCPF GASCHFLHNF  60
PGGYQAVSKM TNLGGPPVPA PPGRMPMGPG APDGPPSPAM KTRMCNKYNT AEGCKWGSKC  120
HFAHGERELG KPMQMDNSMG VPPMGPGPNG HFMPPPMPVP DMVPPSTFGA SATAKISVDA  180
SLAGAIIGKG GTNTKHISRV TGAKLAIRDN EADPNLKNIE LEGTFDQIKH ASAMVTELIV  240
RISGKAPPQS KNNPGRGSHA GGPGSNFKTK LCENFSKGSC TFGDRCHFAH GESELRKPAA  300
A*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.45820.0callus| leaf| root| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.J672800.1.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
GenBankBT0878740.0BT087874.1 Zea mays full-length cDNA clone ZM_BFb0279J08 mRNA, complete cds.
GenBankEU9680080.0EU968008.1 Zea mays clone 312808 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_025810913.10.0zinc finger CCCH domain-containing protein 44-like
SwissprotQ69XQ31e-173C3H44_ORYSJ; Zinc finger CCCH domain-containing protein 44
TrEMBLA0A3L6S1110.0A0A3L6S111_PANMI; Zinc finger CCCH domain-containing protein 44-like isoform X1
STRINGPavir.J02805.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP125438127
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06770.12e-54C3H family protein