RetrogeneDB ID: | retro_ecab_349 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 15:40070246..40070629(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KIAA0947 | ||
| Ensembl ID: | ENSECAG00000023968 | ||
| Aliases: | None | ||
| Description: | KIAA0947 [Source:HGNC Symbol;Acc:29154] |
Retrocopy-Parental alignment summary:
>retro_ecab_349
CAAGGATGTCCAGAAACAGAATTTCACACCAGTGAAAAACTTGGTGATCTAAGTGATAACACTTGGGAACACATAATTGC
CATCTGTCTTCTCTGCTGCCATGAGCAATAGATTTGCACACATGATAAGATCATAAGTAAAGAGCTGTGGCTTGTAATGG
ATAAGTGGATAAAATGCAGAAAAGGACTTGTGAGCATTGCATATACTCCTGATATTATTATGGCATCAATACTGAGGCTG
ATGGTCATTTAGGCCCATTGGATTTGAAGAAATGGTTTCCATCTCATGTCAAAAATATCAGTTTGGTTATGGATATGTTT
ATACAGCATGTTCAAGATGAAGATATACCATGGGGTACACAGTTAGCAGCTGTGTGTACACTC
ORF - retro_ecab_349 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.69 % |
| Parental protein coverage: | 55.6 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | QLCPNTEFQSSERFGEDLSENTWEYVLAIDLLCCHQKWVWTHDHIISKELWPVMDKWIKYRKGHANIAHT |
| Q.CP.TEF..SE..G.DLS.NTWE...AI.LLCCH.....THD.IISKELW.VMDKWIK.RKG...IA.T | |
| Retrocopy | QGCPETEFHTSEKLG-DLSDNTWEHIIAICLLCCHEQ*ICTHDKIISKELWLVMDKWIKCRKGLVSIAYT |
| Parental | PDVIIASVLRLI-GRLGQLGLKEGFPSAVKNISSVIGMFIQHAQDEDIPWGIQLAAVYAL |
| PD.I.AS.LRL..G.LG.L.LK..FPS.VKNIS.V..MFIQH.QDEDIPWG.QLAAV..L | |
| Retrocopy | PDIIMASILRLM<GHLGPLDLKKWFPSHVKNISLVMDMFIQHVQDEDIPWGTQLAAVCTL |
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 |
|---|---|---|
| SRP021940_articular_cartilage | 0 .00 RPM | 12 .57 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 14 .28 RPM |
| SRP021940_embryo | 0 .00 RPM | 61 .48 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 25 .93 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 23 .80 RPM |
| SRP021940_testis | 0 .00 RPM | 14 .26 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_349 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_349 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_349 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000023968 | 1 retrocopy |
retro_ecab_349 ,
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