RetrogeneDB ID:

retro_cpor_922

Retrocopy
location
Organism:Guinea Pig (Cavia porcellus)
Coordinates:scaffold_35:3771409..3771672(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ZNRF2
Ensembl ID:ENSCPOG00000027612
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cpor_922
TTTGAAGGATTTAAGTGCCCTGTGTGCTCAAAATTTGTACCCTCATTTGAAATGGATTTACATCTTGTGATGTGTTTAAC
AAAGCCAAGAATAATCTATACTGTGGATGTGCTGAGTAAAGGTGCTGGGGAATCTGCAATATGCCTTGAAGAATTGCAGC
AGGCAAATTCTATAGTATGACTACTTGCTTGTGTATGTATCATAAAGGCTGCATAGATGAATGGTTTGAAGGAAATGGAT
CTTGCAATGAGCACCCTTCAGAT

ORF - retro_cpor_922 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.78 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalFLGFKCPVCSKFVPSDEMDLHLVMCLTKPRITYNEDVLSKDAGECAICLEELQQGDTIARL-PCLCIYHK
F.GFKCPVCSKFVPS.EMDLHLVMCLTKPRI.Y..DVLSK.AGE.AICLEELQQ...I..L..CLC.YHK
RetrocopyFEGFKCPVCSKFVPSFEMDLHLVMCLTKPRIIYTVDVLSKGAGESAICLEELQQANSIV*L<TCLCMYHK
ParentalGCIDEWFEVNRSCPEHPSD
GCIDEWFE.N.SC.EHPSD
RetrocopyGCIDEWFEGNGSCNEHPSD

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 0 .81 RPM
SRP017611_kidney 0 .00 RPM 4 .71 RPM
SRP017611_liver 0 .00 RPM 11 .32 RPM
SRP040447_lung 0 .00 RPM 1 .61 RPM
SRP040447_skeletal_muscle 0 .00 RPM 0 .80 RPM
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_922 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_922 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 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG00000027612 1 retrocopy
retro_cpor_922 ,
Felis catus ENSFCAG000000265211 retrocopy



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