>retro_cpor_148
CAGGCAGTCCCTATAGAGGCCTTTGGGCTAGCCATGCTTCAGGGTATGGGCTGGCAACCTGGTGAAGGCATTTGTCATAC
TTTCAATCAAGTGCTAAAGCCTTGTGTAAAGTCACTGAGGCCCAAGGGGTTAAGGCTGTGTGCCAACCTGACAAGGCCCA
GGCCTTGGCCTCCAGTGGTTTCTACCACCCACCAAAGCCAGACAGGGAGCAAGAGAAGGATAAGGAAAATCAAACTCAAG
GGCTGTTGAAGGCACTATGGTGGTCCTTTCTGACCCTTATCAGCACCTCTATGGAAAGGTGGAAGGCCTTGATCCTGATA
ATGTGTGGGCCGTGGTTCAGCTAGCAGTAGGCAGTCACATCATGACTATTAGCAGCTACTGCCTGCAACCTGTGTCCCAG
CAGGAATTTCACAAGAATTTCTTGCATCCTGTCCAGCTGAGCAGAACATGCTTTGGACAACACAATGGAATAGCCTGTTA
CAGAAGGCCCTCGAGAATAAAGACCTGCATGACCCTTGAAGGACTTAGACAGAAAGTGGAAATACCCCGCGGACCTACGG
GATGGGCCTGCAGCCAAGAGAGAGAAAGCAGCCAGCAGGAGTCAGCAGTAGCTGCACAGGGACCTGCGCGTGCACTTCGT
GGACAAGTGGCAAAAGTGCGGCCACTATTACAACACTAAGATGACGATTGAAGACGTTCTGAGTCCAGATACCTGTACGT
GCAGGACAGATGAAGACTGAGTCCTGGAAGGTGTGAGGGAAGACATGCTGGAGACCCTGGTTCCCAAGGGCGAGGGTGAT
TGGGTGACGGTGGTGCGGTGGCCACAGGCTGGGAGAGTGGACATCTGCGGGGCAGGGACAGAGTGTGGAGCCAGGCTTTG
GTGCAACCGTGGACAGAGAATCACCTGGTGGAGTTTTACTACAATGCCGTGTGT
ORF - retro_cpor_148 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
66.46 % |
Parental protein coverage: |
65.7 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
5 |
Retrocopy - Parental Gene Alignment:
Parental | EAVPVEAYGLAMLRGMGWKPGEGIGRTFNQVVKPRVNLLRPKGLGLGASLT-EAQALPSSGSYCPPKPGG |
| .AVP.EA.GLAML.GMGW.PGEGI..TFNQV.KP.V..LRPKGL.L.A.LT..AQAL.SSG.Y.PPKP.. |
Retrocopy | QAVPIEAFGLAMLQGMGWQPGEGICHTFNQVLKPCVKSLRPKGLRLCANLT<KAQALASSGFYHPPKPDR |
|
Parental | EQKKGKEDQPQGL-VPGRTVVVLSGPHRGLYGKVEGLDPDNVRAMVRLALGSRMVTVSEYCLRPVSQQEF |
| EQ.K.KE.Q.QGL.V.G.T.VVLS.P...LYGKVEGLDPDNV.A.V.LA.GS...T.S.YCL.PVSQQEF |
Retrocopy | EQEKDKENQTQGL<VEG-TMVVLSDPYQHLYGKVEGLDPDNVWAVVQLAVGSHIMTISSYCLQPVSQQEF |
|
Parental | DKN-LHSDKIGQASRTSLGQHNG-SSLSRKAHQSEDLRG-RQEDPEKKRKHPPDRQDGPVAKSEKAASRS |
| .KN.LH.......SRT..GQHNG..SL..KA....DL......D...K.K.P.D..DGP.AK.EKAASRS |
Retrocopy | HKNFLHPVQL---SRTCFGQHNG<NSLLQKALENKDLHD<PLKDLDRKWKYPADLRDGPAAKREKAASRS |
|
Parental | QHWLHRDLRVRFVDKLYKGGQYYNTKMTIEDVLSPDTCVCRTDKGQVLEGLREDMLETLVPKVEGDRVMV |
| Q..LHRDLRV.FVDK..K.G.YYNTKMTIEDVLSPDTC.CRTD...VLEG.REDMLETLVPK.EGD.V.V |
Retrocopy | QQ*LHRDLRVHFVDKWQKCGHYYNTKMTIEDVLSPDTCTCRTDED*VLEGVREDMLETLVPKGEGDWVTV |
|
Parental | VLGPQAGRV-GHLLGRDRAHNRALVQLQRENQLVELHYDAVC |
| V..PQAGRV.GHL.GRDR....ALVQ...EN.LVE..Y.AVC |
Retrocopy | VRWPQAGRV<GHLRGRDRVWSQALVQPWTENHLVEFYYNAVC |
|
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 |
29 .97 RPM |
SRP017611_kidney |
0 .10 RPM |
25 .02 RPM |
SRP017611_liver |
0 .04 RPM |
17 .89 RPM |
SRP040447_lung |
0 .20 RPM |
30 .29 RPM |
SRP040447_skeletal_muscle |
0 .01 RPM |
12 .46 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_148 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_148 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
3 parental genes, and
4 retrocopies.