RetrogeneDB ID: | retro_fcat_1307 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | C2:135965175..135965860(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | COX18 | ||
| Ensembl ID: | ENSFCAG00000013950 | ||
| Aliases: | None | ||
| Description: | COX18 cytochrome C oxidase assembly factor [Source:HGNC Symbol;Acc:26801] |
Retrocopy-Parental alignment summary:
>retro_fcat_1307
CACTACGTCCTGGCCAAGGTGGAAAATTTGCAGCCAGAAATAAAAAGCATTGCAAGGCATCTCAACCAAGAAGGTGCAGT
TAGTGCAGATCAGTTGAGGTGGTCCAAAAGAGTTGCCAGGCCAACTTACCTAAAGAATACGGGGGGCTTGTTTCAAGAGC
TATATGTTAGGGATAACTGCCACCCTCTCAAAGCCTCTGTGTTGGTCTGGATTCGGTTTCCAATGTGGATCTTCATGTCT
GTTGCTCTTTGGAATTTTAGCACAGGGGCAACACATTCAGATGTAGGTTTTTCTATTCAGGAACAGTTACCTACTAGTAG
GGTCCTGTGGTTTCCTGACCTCACTGCACTGGATTCCTCTTGGATTCTGCTTATCTCTGTTGGTGTCATCAGTTTATTAA
TAGTGGAGATTTTTGCTCTGCAAAAAATTGGAATGACTCCTTTTCAGATGTATATTACGTGCTTTGTTCGTGTGGTATCA
GTGTTGATGATTCCAATTGCTGCAACAGTACCTTCATCAATTGTCCTCTACTGCTTATGTTCCAGATTCATGGGCCTTTC
ACAGAATTTGTTGTTGCATTCTCCTAGGTTTTTGCCAACTTTGCCAAATACCGTTGACCACGTCAGATTCAGACACGCCT
TGTAAGGACCTCTTTGCCACCTTTTATGCTAAGTTTATTTCAAGA
ORF - retro_fcat_1307 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.6 % |
| Parental protein coverage: | 67.66 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | HYILAKVENLQPEIKNIARHLNQEIAIRANQLKWSKRAARLTYLKNMRRLVSELYVRDNCHPFKATVLVW |
| HY.LAKVENLQPEIK.IARHLNQE.A..A.QL.WSKR.AR.TYLKN...L..ELYVRDNCHP.KA.VLVW | |
| Retrocopy | HYVLAKVENLQPEIKSIARHLNQEGAVSADQLRWSKRVARPTYLKNTGGLFQELYVRDNCHPLKASVLVW |
| Parental | IQFPMWIFMSIALRNFSTGATHSEAGFSVQEQLANDGILWFRDLTALDSTWILPISVGVTNLLIVEIFAL |
| I.FPMWIFMS.AL.NFSTGATHS..GFS.QEQL.....LWF.DLTALDS.WIL.ISVGV..LLIVEIFAL | |
| Retrocopy | IRFPMWIFMSVALWNFSTGATHSDVGFSIQEQLPTSRVLWFPDLTALDSSWILLISVGVISLLIVEIFAL |
| Parental | QKTGMSRFQTYITYFVRAVSVLMIPVAATVPSSIVLYWLCSSFMGLSQNLLLRSPRFR-RLCRIPLTKSD |
| QK.GM..FQ.YIT.FVR.VSVLMIP.AATVPSSIVLY.LCS.FMGLSQNLLL.SPRF...LC.IPLT.SD | |
| Retrocopy | QKIGMTPFQMYITCFVRVVSVLMIPIAATVPSSIVLYCLCSRFMGLSQNLLLHSPRFL>QLCQIPLTTSD |
| Parental | SDTPYKDLFAAFYAKFISR |
| SDTP.KDLFA.FYAKFISR | |
| Retrocopy | SDTPCKDLFATFYAKFISR |
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 | 5 .97 RPM |
| SRP017611_kidney | 0 .00 RPM | 6 .90 RPM |
| SRP017611_liver | 0 .00 RPM | 2 .02 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1307 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1307 was not experimentally validated.
Retrocopy orthology:
Felis catus 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000013950 | 1 retrocopy |
retro_fcat_1307 ,
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