RetrogeneDB ID:

retro_cpor_379

Retrocopy
location
Organism:Guinea Pig (Cavia porcellus)
Coordinates:scaffold_14:1980589..1980850(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCPOG00000006809
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cpor_379
GGGAATGAGGGTGTCTTGCTGGCTAACACTGACACACATGCTTTCTGTACAGACATCCCACCTACCACCGCAGTGGACTT
GATTGGAAGATGTTATTTCACCGAAATCTGCAAGTGTAAACTGAAAGACATCTTGTGTTTAAAATGTGGAAACGTTGTAG
GTTATCCGGGGATTGTTCCCTGTAGTTCCTGCCTTCTTTCCTGCAACTATAAACACTTCTGAATGTTTCACAATCAGGCA
GTTCCTGGTATACACTTCCTA

ORF - retro_cpor_379 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.71 %
Parental protein coverage: 58.39 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGMKAVLLADTEIDLFSTDIPPTNAVDFIGRCYFTEICKCKLKDIACLKCGNIVGYHVIVPCSSCLLSCNN
G...VLLA.T....F.TDIPPT.AVD.IGRCYFTEICKCKLKDI.CLKCGN.VGY..IVPCSSCLLSCN.
RetrocopyGNEGVLLANTDTHAFCTDIPPTTAVDLIGRCYFTEICKCKLKDILCLKCGNVVGYPGIVPCSSCLLSCNY
ParentalGHFWMFHSQAVYGINRL
.HF.MFH.QAV.GI..L
RetrocopyKHF*MFHNQAVPGIHFL

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 .58 RPM
SRP017611_kidney 0 .00 RPM 0 .21 RPM
SRP017611_liver 0 .00 RPM 0 .04 RPM
SRP040447_lung 0 .00 RPM 0 .38 RPM
SRP040447_skeletal_muscle 0 .00 RPM 0 .01 RPM
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_379 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_379 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 1 parental gene, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG00000006809 2 retrocopies
retro_cpor_379 , retro_cpor_391,



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