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.1KG065100.1.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: 455aa    MW: 52381.1 Da    PI: 10.2834
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG065100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH21.73.7e-073357127
                         --S---SGGGGTS--TTTTT-SS-SSS CS
              zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                         ykt+lC+ ++r G C++ d C+FaHg+
  Pavir.1KG065100.1.p 33 YKTKLCSLWQR-GGCPR-DPCSFAHGR 57
                         9**********.*****.*******96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.3E-122762IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.55E-53162IPR000571Zinc finger, CCCH-type
SMARTSM003560.0023257IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.0053258IPR000571Zinc finger, CCCH-type
PfamPF006427.1E-53357IPR000571Zinc 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: 455 aa     Download sequence    Send to blast
MRDRSPDRES PSRERGDRPP PGMLDPPRRG PAYKTKLCSL WQRGGCPRDP CSFAHGRSEL  60
RRFPGSRTSF PPRAGSRDYR GGDFRDRFDR RRSPHRRHSP DRDSRGHRSR HDRRAVSQER  120
ESSYSRSPSR KSERRHEKKP DDGETNSSRS LSISDKNDDK KKEALLGAND KEDQEIQLKQ  180
KRQDMELLRE DKSRLEIILD EKNDEVHKIS SRVNDLELQI RKEKEECHRM TSKMKKFIKA  240
HARFLKAQEE LKRSQARFER LGDLLASDIL KRVANEEVSS MNVDEDPNGP SERSPNAATA  300
KKRSIPYSTS EEAKAVKKRT YLDAEFDKPS LGTEPTKAVY LKKKLWEDEK DKIVNVVSSA  360
NIDKVKDSPA RHVLPSTVMA AHAVDDLFKA VELEARHYPI NASVENGAGC ETRLPAIPHS  420
HHQCLMLTSR MRVMMRKSTW SKWMVEMVEV ILVC*
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1KG065100.1.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.Ab00438.1.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-21C3H 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]