>retro_cpor_595
AGTGCCTTTCCATGGATTGGCTTCTTGCCTTTTGGAAAACATCAACAGCTGTTTAGAAATGCAGCTATGGTCTATGATTT
TCTCTCCAGACTTACTGAAAAAGCTTCAGTAAACAGAAAACTTTAGGTACCTCAGCATTTTGTTGATGCTTATGTAGACT
AAATGGATCAAGGTAAAAATGACCCATCATCTACCTTCTCCAAAGAAAACCTAATTTTCTGAGGGGTGATCTTATCATTG
CTGGAACTGAAACTACAACCAATGTTCTATGCTGGGCAATTATTTTCACGGCCCTTTATCCCAACATTCAAGGACAAGTT
TGAAAAGAGATTGATTTGGTAATGGGCCCAAATAGACAGCCTTCTTGGTATGAAAAATGCAAAAGGCCATACACTAAAGC
AGTTTTGCATGAAGTTTTAAGATTCTGCTATATAGTTCCATTAGGGATTTTCCACGCAGTCTCTGAAGATGCAGTCATAT
GTGGTTATTCCATTCTAAAAGGCACAATGATAATTACAAATCCTAATTCTGTACACTTTGATGGAAAGTACCGGAGAGAC
CCAGAAGTGTTCTATCCTGAACAATTTCTAAACAGTAGTGGATATTTTGTAAAAAAGAAAGCTTTGGTTCCTTTTTCCTT
AGGGAAAAGACATTGTCTTGGAGAACAGCAGGCTCAAATGGAAATGTTTTTTACAGCATTGCTTTAGCAGTTTCATTTGC
ATTTTCCACATGAACTACTTCCAAATCTGAAGCCCAGGTTAGGGATGACATTGTAGCCCAGCCTTACCTCATCTGT
ORF - retro_cpor_595 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
79.26 % |
Parental protein coverage: |
53.49 % |
Number of stop codons detected: |
5 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | NAFPWIGILPFGKHHQLFKNAAVVSDFLSRLIEKASVNRKPQLPRHFVDAYLDEMDQGKNDPSSTFSKEN |
| .AFPWIG.LPFGKH.QLF.NAA.V.DFLSRL.EKASVNRK...P.HFVDAY.D.MDQGKNDPSSTFSKEN |
Retrocopy | SAFPWIGFLPFGKHQQLFRNAAMVYDFLSRLTEKASVNRKL*VPQHFVDAYVD*MDQGKNDPSSTFSKEN |
|
Parental | LIF-SVGELIIAGTETTTNVLRWAILFMALYPNIQGQVWKEIDLIMGPNRQPSWDDKCKMPYTEAVLHEV |
| LIF...G.LIIAGTETTTNVL.WAI.F.ALYPNIQGQV.KEIDL.MGPNRQPSW..KCK.PYT.AVLHEV |
Retrocopy | LIF<LRGDLIIAGTETTTNVLCWAIIFTALYPNIQGQV*KEIDLVMGPNRQPSWYEKCKRPYTKAVLHEV |
|
Parental | LRFCNIVPLGIFHATSEDAVVRGYSIPKGTTVITNLYSAHFDEKYWRDPEVFYPERFLDSSGDFVKKEAL |
| LRFC.IVPLGIFHA.SEDAV..GYSI.KGT..ITN..S.HFD.KY.RDPEVFYPE.FL.SSG.FVKK.AL |
Retrocopy | LRFCYIVPLGIFHAVSEDAVICGYSILKGTMIITNPNSVHFDGKYRRDPEVFYPEQFLNSSGYFVKKKAL |
|
Parental | VPFSLGRRHCLGEQLARMEMFLFFTALLQRFHLHFPQDLVPNLMPRLGMTLQP-QPYLVC |
| VPFSLG.RHCLGEQ.A.MEM..FFTALL..FHLHFP..L.PNL.PRLGMTL.P.QPYL.C |
Retrocopy | VPFSLGKRHCLGEQQAQMEM--FFTALL*QFHLHFPHELLPNLKPRLGMTL*P<QPYLIC |
|
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 .92 RPM |
SRP017611_kidney |
0 .00 RPM |
12 .77 RPM |
SRP017611_liver |
0 .00 RPM |
8 .05 RPM |
SRP040447_lung |
0 .00 RPM |
1 .24 RPM |
SRP040447_skeletal_muscle |
0 .00 RPM |
1 .02 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_595 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_595 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
3 retrocopies.