>retro_cpor_392
GCAGTTGCAGTAAAGAATGTAGATATGAAGCATGATGTAGATTGTCCAGGAAACATTAAGAAAGTGATCTGTATCACTAA
AATGTTAAATCATGAAATTTAGTGAAATTCTATGGTCACAGGAGAGAAGGCAATATCCAGAATCTATTTCTGGAGTACGG
TGGTGGGGGAGAGCTTTTTGATAGAATAGAGCCAGACATAGGCATGCCTGAACAAGATGTTCAGAGATTCTTGCATCAAC
TCATGGCAGGGGTGGTTTATTTGCGTGGTATTGGAATAACTCGCAGGAATATTAAGCCAGAAAAATCTTCTGGATAAAAG
GGATAACCTCAAAATCTCTGGCTTTGGCTTAACCACAGTGTTTTGGCATAATAATCGCGAATGTTTATTGAACAAGACAT
GTGGTATGTTACCTTAAGTTGCTTCAGAACTTCTAAAGGGAAAGGAATTTCATGCACAACCAGTTGTTTGGCCCTGTGGA
ATAGTGCTTACTGCCATGTTGGCTGGGGAATTGCCATTGGGCCAGTGACAGTTGTCAGGAATATGTTGATTGGAAAGTAA
AGAAGGCATATCTCAACCCTTGGAAAGAAATTGATTCTGCTTCACTAGTTCTGCTACATAAAATCCTAGTTGAAAATCCA
TCGATAAGGATTACCATTCCAGACATCAAAAAAGATAGATGGTATAACAAACCACTCAAGAAAGGCGCAAAGAGGCCCCA
GGTCACTTCAGGTGGTGTGTCAGAGTCTCCTAGTGGATTCTCTAAGCCTATTCACTCAAATTTGGACTTCTCTCCAGTAA
ACAGTGCTTCTAGTGAAGAAAATGTGAAGTACTCCAGTTCTCAGCCAGAATCCTGGATGGGTCTTTCTTTGTGGGAGACC
TGTCCCTCGTATATCGATAAACTGGTATAAGGGATCAGTTTTTCTCAACCTGCATGCCCCGATCATGTT
ORF - retro_cpor_392 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
76.47 % |
Parental protein coverage: |
67.16 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | AVAVKIVDMKRAVDCPENIKKEICINKMLNHE-NVVKFYGHRREGNIQYLFLEYCSGGELFDRIEPDIGM |
| AVAVK.VDMK..VDCP.NIKK.ICI.KMLNHE.N.VKFYGHRREGNIQ.LFLEY..GGELFDRIEPDIGM |
Retrocopy | AVAVKNVDMKHDVDCPGNIKKVICITKMLNHE<NLVKFYGHRREGNIQNLFLEYGGGGELFDRIEPDIGM |
|
Parental | PEQDAQRFFHQLMAGVVYLHGIGITHRDIKPE-NLLLDERDNLKISDFGLATVFRHNNRERLLNKMCGTL |
| PEQD.QRF.HQLMAGVVYL.GIGIT.R.IKPE.NL.LD.RDNLKIS.FGL.TVF.HNNRE.LLNK.CG.L |
Retrocopy | PEQDVQRFLHQLMAGVVYLRGIGITRRNIKPE>NL-LDKRDNLKISGFGLTTVFWHNNRECLLNKTCGML |
|
Parental | PYVAPELLKRKEFHAEPVDVWSCGIVLTAMLAGELP-WDQPSDSCQEYVDWKEKKTYLNPWKKIDSAPLA |
| P.VA.ELLK.KEFHA.PV.VW.CGIVLTAMLAGELP.W...S..CQEYVDWK.KK.YLNPWK.IDSA.L. |
Retrocopy | P*VASELLKGKEFHAQPV-VWPCGIVLTAMLAGELP>WASDS--CQEYVDWKVKKAYLNPWKEIDSASLV |
|
Parental | LLHKILVENPSIRITIPDIKKDRWYNKPLKKGNKKVQDEDDCYKKRPGRFYLKIFL-LSMTPYVCSLSEE |
| LLHKILVENPSIRITIPDIKKDRWYNKPLKKG.K..Q.........P..F...I...L...P.....SEE |
Retrocopy | LLHKILVENPSIRITIPDIKKDRWYNKPLKKGAKRPQVTSGGVSESPSGFSKPIHSNLDFSPVNSASSEE |
|
Parental | NVKYSSSQPEPRTGLSLWDTCPSYIDKLVQGISFSQPACPDHM |
| NVKYSSSQPE...GLSLW.TCPSYIDKLV.GISFSQPACPDH. |
Retrocopy | NVKYSSSQPESWMGLSLWETCPSYIDKLV*GISFSQPACPDHV |
|
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 .23 RPM |
1 .15 RPM |
SRP017611_kidney |
0 .10 RPM |
4 .08 RPM |
SRP017611_liver |
0 .30 RPM |
3 .22 RPM |
SRP040447_lung |
0 .08 RPM |
3 .58 RPM |
SRP040447_skeletal_muscle |
0 .00 RPM |
1 .08 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_392 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_392 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.