RetrogeneDB ID:

retro_cpor_373

Retrocopy
location
Organism:Guinea Pig (Cavia porcellus)
Coordinates:scaffold_136:290136..290488(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:METTL5
Ensembl ID:ENSCPOG00000003343
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cpor_373
AAAATACTTAGTAAGGAAGAGGAAGAGTTTGAGTTAACAAATGTTGGCATGATTCAGTGTACTATATGCTCATTAGCTAC
CAGAATATTCAAGTAATTTGATACAGTAATTATAAAACTCCCTTTTGGTACCAAAACTAATTAAAGGGACAGGGATGGCT
TCATTGGAGAATACATTGAAAATGGCAAGAATATTAACAAAATTCTTAAGGAGAGTACAGATTCAAAACAAAGCCACAAA
ATGAAAAGTCAAGATATACATTTGTACAGAAATTTGATGCCTTTCAGCATCACATAAATTTTATAAAAAGAAATTAGTAG
ACACTGAAGTGGACTTAATTTGATTTTCTTTT

ORF - retro_cpor_373 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.22 %
Parental protein coverage: 58.94 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalEIFNRNVEEFELTNVDMVQCDVCSLSNRMAKSFDTVIMNPPFGTKNN-KGIDMTFLKTALEMARTAVYSL
.I.....EEFELTNV.M.QC..CSL..R..K.FDTVI...PFGTK.N.KG..M..L...L.MAR.....L
RetrocopyKILSKEEEEFELTNVGMIQCTICSLATRIFK*FDTVIIKLPFGTKTN>KGTGMASLENTLKMARI----L
ParentalHKSSTREHVQKKAAEWKIKIDIIAELRYDLPALYNFHKKKSVDIEVDLIRFSF
.K...R...Q.KA...K.KI.I..E....L.A...F.KKK.VD.EVDLI.FSF
RetrocopyTKFLRRVQIQNKATK*KVKIYICTEI*C-LSASHKFYKKKLVDTEVDLI*FSF

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 9 .55 RPM
SRP017611_kidney 0 .00 RPM 9 .53 RPM
SRP017611_liver 0 .00 RPM 10 .23 RPM
SRP040447_lung 0 .00 RPM 10 .24 RPM
SRP040447_skeletal_muscle 0 .00 RPM 14 .92 RPM
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_373 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_373 was not experimentally validated.

Retrocopy orthology:
Cavia porcellus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 10 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG00000003343 1 retrocopy
retro_cpor_373 ,
Dasypus novemcinctus ENSDNOG000000134602 retrocopies
Homo sapiens ENSG000001383822 retrocopies
Gorilla gorilla ENSGGOG000000224842 retrocopies
Loxodonta africana ENSLAFG000000180442 retrocopies
Macaca mulatta ENSMMUG000000230543 retrocopies
Nomascus leucogenys ENSNLEG000000050184 retrocopies
Oryctolagus cuniculus ENSOCUG000000104051 retrocopy
Pongo abelii ENSPPYG000000129162 retrocopies
Pan troglodytes ENSPTRG000000126213 retrocopies



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