RetrogeneDB ID: | retro_ecab_555 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 20:35025869..35026331(-) | ||
| Located in intron of: | ENSECAG00000009741 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C10orf82 | ||
| Ensembl ID: | ENSECAG00000000731 | ||
| Aliases: | None | ||
| Description: | chromosome 10 open reading frame 82 [Source:HGNC Symbol;Acc:28500] |
Retrocopy-Parental alignment summary:
>retro_ecab_555
ATGGAGTCTTCCAAGACCTTCATGAGACAGCTGCCAATCACACCAGGCTACAGTGGCTTCGTGCCATACCTTAGCTGCGA
GGGAACCTCCAGCAAGGACAACATGTCCCACTGTCTGAAAACCTTCCAGGAGATCACACAGCGATATAAAGACCAGAGGG
AGGAATTTCACTGCTCGGTCGCCGCTGCCCCAAAACTGAAGCCCATCTGCTCTGAGGAGACGGTCCTGCGGGCCCTGCAC
CAGTACGAACGGCAGTACCACCCCACGAGTCTGGAATGCAAGTACATAAAGAAACCTCTCCAGGAGCCTCCGATCCCTGG
CTGGGCGGGCTACCTGCCGAGAGCCAGGGTCACTGAATTAGGCTGCGCCACACGGTACACTGTCATGGCCAGAAATTGCT
ACAAGGACTTCCTGGACATCACAGAGCAGGCCAAGAGAGTGCACCTGAAGCCATATGAGGAG
ORF - retro_ecab_555 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.75 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MESSKTFMRQLPITPGYCGFVPYLSCEGTSSENNMSHCLKTFQEITQRYKDQLEEFHCSVAAAPKLKPIC |
| MESSKTFMRQLPITPGY.GFVPYLSCEGTSS..NMSHCLKTFQEITQRYKDQ.EEFHCSVAAAPKLKPIC | |
| Retrocopy | MESSKTFMRQLPITPGYSGFVPYLSCEGTSSKDNMSHCLKTFQEITQRYKDQREEFHCSVAAAPKLKPIC |
| Parental | SEETVLRALHQYERQYHPTSLECKYVKKPLQEPPIPGWAGYLPRARVTELGCATRYTVMARNCYKDFLDI |
| SEETVLRALHQYERQYHPTSLECKY.KKPLQEPPIPGWAGYLPRARVTELGCATRYTVMARNCYKDFLDI | |
| Retrocopy | SEETVLRALHQYERQYHPTSLECKYIKKPLQEPPIPGWAGYLPRARVTELGCATRYTVMARNCYKDFLDI |
| Parental | TEQAKRVHLKPYEE |
| TEQAKRVHLKPYEE | |
| Retrocopy | TEQAKRVHLKPYEE |
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 .12 RPM | 1 .42 RPM |
| SRP021940_cerebellum | 0 .21 RPM | 0 .05 RPM |
| SRP021940_embryo | 0 .23 RPM | 1 .07 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 0 .29 RPM |
| SRP021940_synovial_membrane | 0 .14 RPM | 0 .88 RPM |
| SRP021940_testis | 0 .19 RPM | 49 .24 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_555 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_555 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_555 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 | ENSECAG00000000731 | 1 retrocopy |
retro_ecab_555 ,
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