>retro_cpor_1258
AAGGTGAGAAAAGAACTCAGCAGAGTAGAACAGAAGCATTGTGCCAGCCAGCTCTGAAACCATAACAAGGAGGCAGTTCT
GGCAGAGAAGAGACAGCTAGCAGCAACTCATCAGGTGCTGGTGGTGCCTTCGTATAACAGAATTTCTTTGTCTGAAGCCC
CTCACTTGCTTCAGCATAGGAACATGAGAACAGTGCTCCTGCAGAAATGGGAGAACACTCAGTGCTTTATGCTGCTGTGC
CTAATTGAAACATTGGTGTTTTTTTTACATCTGCAAAGCCAGGGCATCTGCATACTGTGTTAGACATGGGTAAAGTGGTT
GACACCATCTTATTCCTCTTTGATCCACTAGAAGGCTGGGACAGCACTTGGGATTATCCCTTTTCTGCCTCTGCTTAGGC
CTCCCTACCTATACACTAGCTGTTCAAGGGGTTTCTGACCTCCCACCTAAGAGGCTGGTAGATTCCAGAAAGAAGCTAAG
TAAAGTAGTGGAAAGTATTTTCCTGATGATAAACTCTTCCTGTTAGACATTCAGCAGGAGGCAGGGATGCTGCTTAGGCA
GCTGGCTAACCAAAAGCAAAGACATCTTGCTTTTGGAGATTGGCAAGCCTACTTGTTTGTCTATGCTGCGGATTTTGTGC
CCAAGGAAGAGAATAACTTGGTGGGCACTTTGAAAATCTCAGGCTATGTGCACAGGCAGACTTTGAATATAAATAGCTTG
CTGTATATCTCTGGACATGATGATTTTCAAAAGAAACAAATTGATACCCCTATGGATCCTTTCCTTTTAAATCCTAGAGT
TATTAACTCTCAGAAGGATCCAGGCATGACAAAGGAGGTTTGTGCTACAGATGCTGTAGCTGATATGAAACACCTTAAGG
TCATGACAAAGGCAGACTCTAACAGACAAGAGTCTTTGCAAACAGAAGTTATCCCAGAACCAGTGGAAGGGGAGAAATCC
TGGCCCACTGAGGAGGAGCTGAATGAGGCAAATGACTTGTTGAAGGAAAGTTTCAAGGTGGTAAAGAAGGTTCCCAAAGG
AACATCCAGTTACCAAGCTTAGTGGATTTTGGATGAAGGCGGTAAAAGTGGTGGGGAAGGAGATGAC
ORF - retro_cpor_1258 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
74.34 % |
Parental protein coverage: |
50.34 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
3 |
Retrocopy - Parental Gene Alignment:
Parental | KVRRELSRVDQRHRASQLRKQKKEAVLAEKRQLGSKDGAPHQVLVVPLHNRISLLEALHLLQDRNVGTVH |
| KVR.ELSRV.Q.H.ASQL....KEAVLAEKRQL.....A.HQVLVVP..NRISL.EA.HLLQ.RN..TV. |
Retrocopy | KVRKELSRVEQKHCASQL*NHNKEAVLAEKRQLA----ATHQVLVVPSYNRISLSEAPHLLQHRNMRTVL |
|
Parental | VQEWERTHRFMLLC-PQLKHRWFFTSAKPGDLHTVLDMAKVADTILFLLDPLEGWDSTGDYCLS-CLFAQ |
| .Q.WE.T..FMLLC.P........TSAKPG.LHTVLDM.KV.DTILFL.DPLEGWDST.DY..S.CL... |
Retrocopy | LQKWENTQCFMLLC<PN*NIGXXXTSAKPGHLHTVLDMGKVVDTILFLFDPLEGWDSTWDYPFS<CL-CL |
|
Parental | GLPTHTLAVQGVSCLPPKKQVDSRKKLSKVVE-KRFPDDKLFLLDTQQEAQLLLRQLANQKQRHLAFRDR |
| GLPT.TLAVQGVS.LPPK..VDSRKKLSKVVE.K.FPDDKLFLLD.QQEA..LLRQLANQKQRHLAF.D. |
Retrocopy | GLPTYTLAVQGVSDLPPKRLVDSRKKLSKVVE<KYFPDDKLFLLDIQQEAGMLLRQLANQKQRHLAFGDW |
|
Parental | RAYLFAHAADFVPGEQNKLVGTLKISGYVRGQNLNVNSLLHIVGHGDFQMKQIDAPMDPFPLNPRVIKSL |
| .AYLF..AADFVP.E.N.LVGTLKISGYV..Q.LN.NSLL.I.GH.DFQ.KQID.PMDPF.LNPRVI.S. |
Retrocopy | QAYLFVYAADFVPKEENNLVGTLKISGYVHRQTLNINSLLYISGHDDFQKKQIDTPMDPFLLNPRVINSQ |
|
Parental | KDPGMVMEVCTTDAVADMEDLKVLMKADPSRQESLQTEVIPDPMDGEQTWPTEEELSEAKDLLKESSKVV |
| KDPGM..EVC.TDAVADM..LKV..KAD..RQESLQTEVIP.P..GE..WPTEEEL.EA.DLLKES.KVV |
Retrocopy | KDPGMTKEVCATDAVADMKHLKVMTKADSNRQESLQTEVIPEPVEGEKSWPTEEELNEANDLLKESFKVV |
|
Parental | KKVPKGTSSYQAEWILDEGGESDGEGED |
| KKVPKGTSSYQA.WILDEGG.S.GEG.D |
Retrocopy | KKVPKGTSSYQA*WILDEGGKSGGEGDD |
|
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 |
25 .36 RPM |
SRP017611_kidney |
0 .00 RPM |
26 .80 RPM |
SRP017611_liver |
0 .04 RPM |
16 .63 RPM |
SRP040447_lung |
0 .00 RPM |
23 .56 RPM |
SRP040447_skeletal_muscle |
0 .00 RPM |
22 .39 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_1258 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_1258 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.