>retro_cpor_996
ATGAAAGGGGAATTAGAGCTCTTCCAGAATATCAGACCCCTCTTTATCAACAAACTCTTACAGTTGCAGCAAACAAATGT
GATGTGAAGAGAATAGCTGAACTTCCTAAATATGATCTGGAAATATTTATAGACTTACAGTCCGAAGGGTTCTCTGGTTA
AAGAAATTAGCACCCTGGCTGAGAAAGGTGTTATTAAAGTTAAAACAGAGACTTGTGATGGGCTTTTGGCTCATTGAGTA
GAAACCAAAATGAAAGGAAATGAAGTGAATGAATGCTAAATGGATTGCACTTAGCTATTCCAAACAAGAGAGATGATAAG
GAGAGGCAACCCTCCATCCCAGAAGGAGTGGTGGCATGCAACAAGAGAATGGAAATTGGGGAACACAAGAAAAGGGAATG
AGGTCTTGAGCTGGAAGTGGGAGATATTTTGGATCGTTGAAAATACTGGGATTTAATGAATTCATCTGAAAAATATGAGA
AGATACCAGAGATCTGGGAAAGTCAATGTAGCTGTTTATACTGACCCTGCTATCATGAAGAAATTGAAAGAATTAGAAAA
AGAAAAATTAAGAACAGCTATGAAAGTATGACAGTAAGTCTGAAAGTGAAGATGAAGAAATGACGGAAATCTGACAGCTG
GCAAAACAGATTAGAGAAAAAAAGAAATTGAAAATTCTGTAATCAGAAGAAATGAATACCCAGGGATCAAGGATGCCTAA
GATTCAGTAGACAATTTTGGACAATTAGATGTAAAGTCTTGATATTGACATGAATGATAAAAACAATGCCCAGTATGCAA
TCCAGGCAACTTGGTCTCAGAGTGTCGCTAGGAAAAGAAAGCGAGAAGGTTCTGTTCCACCCACTTCTGTAGCCCAGAGT
TAGAGTTGCTCTCAAACTCTATTCAACGTTTCTGGTCTTTGGGATGTGAAGATGGTGAAGAAATCCAAGATTATAAAAAA
GAATGCTCAGAAGAAGATGAATCGCTTGGGGAAGAAAGAGGAGGCAGTTATACATATATTTGGTATGAAAGCCAAACACT
TAACCCTCTGGAAAGAGGAAAGCTCTGTAAAAAGGACAGAAGA
ORF - retro_cpor_996 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
62.53 % |
Parental protein coverage: |
58.36 % |
Number of stop codons detected: |
10 |
Number of frameshifts detected |
6 |
Retrocopy - Parental Gene Alignment:
Parental | LKEQLELFQNIRPLFVNK-PLIVVANKCDVKRIAELPEDDQKIFIDLQAEGFP-VIETSTLTEEGVIKVK |
| .K..LELFQNIRPLF.NK..L.V.ANKCDVKRIAELP..D..IFIDLQ.EGF..V.E.STL.E.GVIKVK |
Retrocopy | MKGELELFQNIRPLFINK<TLTVAANKCDVKRIAELPKYDLEIFIDLQSEGFS>VKEISTLAEKGVIKVK |
|
Parental | TEACDRLLAHRVETKMKGNKVNE-VLNRLHLAIPNKRDDKERPPFIPEGVVARKKRMDIGEPKKKRERDL |
| TE.CD.LLAH.VETKMKGN.VNE..LN.LHLAIPNKRDDKER.P.IPEGVVA..KRM.IGE..KKRE..L |
Retrocopy | TETCDGLLAH*VETKMKGNEVNE<MLNGLHLAIPNKRDDKERQPSIPEGVVACNKRMEIGE-HKKRE*GL |
|
Parental | ELEMGDDYILDLQKYWDLMNSSEKYDKIPEIWEGHNVADYIDPAIMKKLEELEKEEELRTAAGEYDSESE |
| ELE.GD..ILD..KYWDLMNSSEKY.KIPEIWE......Y..P......E...K....R.....Y.S... |
Retrocopy | ELEVGD--ILDR*KYWDLMNSSEKYEKIPEIWESQCSCLY-*PCYHEEIERIRK----RKIKNSYESMTV |
|
Parental | S-EDEEMLEIRELARQIREKKKLKILQ---SKEKNTQGPRMPRTAKKVQRTVLENEMRSLGIDMDDKDNT |
| S....E..E..E...........K.L....S.E.NTQG.RMP......Q.T.L.N.M.SL.IDM.DK.N. |
Retrocopy | S<SESEDEEMTEI*QLAKQIREKKKLKIL*SEEMNTQGSRMPK----IQ*TILDN*M*SLDIDMNDKNNA |
|
Parental | HYAIQARRSRSITRKRKREDSVPPTSVARSRSCSRTPRDVSGLRDMKMVKKAKTMMKNAQKKMNRLGKKG |
| .YAIQA..S.S..RKRKRE.SVPPTSVA.S.SCS.T...VSGL.D.KMVKK.K...KNAQKKMNRLGKK. |
Retrocopy | QYAIQATWSQSVARKRKREGSVPPTSVAQS*SCSQTLFNVSGLWDVKMVKKSKIIKKNAQKKMNRLGKKE |
|
Parental | EADRHVFDMKPKHLL-SGKRKA-GKKDRR |
| EA..H.F.MK.KHL..SGKRKA..KKDRR |
Retrocopy | EAVIHIFGMKAKHLT>SGKRKA>CKKDRR |
|
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 |
22 .95 RPM |
SRP017611_kidney |
0 .00 RPM |
39 .89 RPM |
SRP017611_liver |
0 .00 RPM |
22 .37 RPM |
SRP040447_lung |
0 .00 RPM |
29 .66 RPM |
SRP040447_skeletal_muscle |
0 .01 RPM |
24 .86 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_996 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_996 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
5 parental genes, and
7 retrocopies.