RetrogeneDB ID: | retro_ecab_284 | ||
Retrocopylocation | Organism: | Horse (Equus caballus) | |
| Coordinates: | 13:2235978..2236292(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | MLANA | ||
| Ensembl ID: | ENSECAG00000009103 | ||
| Aliases: | None | ||
| Description: | melan-A [Source:HGNC Symbol;Acc:7124] |
Retrocopy-Parental alignment summary:
>retro_ecab_284
CCAAAGAAGGAATTTTACACACACACGGCCAGCCAGCAGATGGAGGGACCATCTCATCCAAGAAGGACGGCGAGGATTGA
CATCCTAACAGTGATCCTGGGAATTTCACCGCTCATCGGCTGTTGGCATTGCAGAAGAAGAAGTGGACACAGAACCTTGA
AGGACAAAACCCTTCTTGTTAGTAGTCAAAGTGTGACTGGAGGATCCTTGGTGAGGGGCTTGCCCACCAGGACAGCAAAC
TGCCTTTTCAAGAGGACAGCGGTCCCCCTGTGGGCTCCAATGCTTTGCCTGCCCGTGAGAAACTCTGCAGAACG
CCAAAGAAGGAATTTTACACACACACGGCCAGCCAGCAGATGGAGGGACCATCTCATCCAAGAAGGACGGCGAGGATTGA
CATCCTAACAGTGATCCTGGGAATTTCACCGCTCATCGGCTGTTGGCATTGCAGAAGAAGAAGTGGACACAGAACCTTGA
AGGACAAAACCCTTCTTGTTAGTAGTCAAAGTGTGACTGGAGGATCCTTGGTGAGGGGCTTGCCCACCAGGACAGCAAAC
TGCCTTTTCAAGAGGACAGCGGTCCCCCTGTGGGCTCCAATGCTTTGCCTGCCCGTGAGAAACTCTGCAGAACG
ORF - retro_ecab_284 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 55.45 % |
| Parental protein coverage: | 92.37 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PREEAYFTYGYPKMGHGRSHITAEEAAGIGILIVILGILLLIGCWYCRRRSGYKSLKDKSIYVSTQSTLT |
| P..E...T........G.SH......A.I.IL.VILGI..LIGCW.CRRRSG...LKDK...VS.QS..T | |
| Retrocopy | PKKE-FYTHTASQQMEGPSH--PRRTARIDILTVILGISPLIGCWHCRRRSGHRTLKDKTLLVSSQS-VT |
| Parental | G-RCPREGLGHQDSKLPFQENSCDPVVPNAPPAYEKLSAT |
| G.R...EGL.HQDSKLPFQE.S..PV..NA.PA.EKL..T | |
| Retrocopy | G<RILGEGLAHQDSKLPFQEDSGPPVGSNALPAREKLCRT |
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 | 0 .06 RPM |
| SRP021940_cerebellum | 0 .05 RPM | 0 .05 RPM |
| SRP021940_embryo | 0 .03 RPM | 0 .10 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 0 .10 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 0 .19 RPM |
| SRP021940_testis | 0 .00 RPM | 0 .00 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_284 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_284 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_284 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 | ENSECAG00000009103 | 1 retrocopy |
retro_ecab_284 ,
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