RetrogeneDB ID: | retro_ocun_973 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 18:41603687..41603982(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | APOA2 | ||
| Ensembl ID: | ENSOCUG00000013523 | ||
| Aliases: | None | ||
| Description: | apolipoprotein A-II [Source:HGNC Symbol;Acc:601] |
Retrocopy-Parental alignment summary:
>retro_ocun_973
AAATATCACGCAGTGGCTGTGCTGCTCCACGCCATCTGTGCCTTGAAGGGGCTTTGGTTCGAAGGCAGGCACAGGAGCAG
AGTCTGCAGAGCCTGGTCTCTCAGTACTTGCAGATCATAACCAACTACGGCAAGGACCTGATGGAAAAGGCCAAGGCCCC
TGAGCTCAGGCCCAGGCCAAGGCCTACTTTGAAAAGACACAAGAGCAGCTGACGCCCTTGGTCAAGAAGGCTGGAACTGA
TCTGTTTAACTTCTTGAGCAATTTCATGGATCTCAAAACACAGCCTGCTGCCCCG
ORF - retro_ocun_973 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.13 % |
| Parental protein coverage: | 99.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | KLLAMTVLLLTICSL-EGALVRRQAEEQSLQSLVSQYLQTVTNYSKDLMEKAKAPEL-QAQAKAYFEKTQ |
| K..A..VLL..IC.L.EGALVRRQA.EQSLQSLVSQYLQ..TNY.KDLMEKAKAPEL.QAQAKAYFEKTQ | |
| Retrocopy | KYHAVAVLLHAICAL<EGALVRRQAQEQSLQSLVSQYLQIITNYGKDLMEKAKAPEL<QAQAKAYFEKTQ |
| Parental | EQLTPLVKKAGTDLFNFLSNFMDLKTQPAAP |
| EQLTPLVKKAGTDLFNFLSNFMDLKTQPAAP | |
| Retrocopy | EQLTPLVKKAGTDLFNFLSNFMDLKTQPAAP |
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 .06 RPM | 89 .24 RPM |
| SRP017611_kidney | 0 .20 RPM | 1 .62 RPM |
| SRP017611_liver | 0 .15 RPM | 37 .07 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_973 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_973 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_973 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 | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000013523 | 1 retrocopy |
retro_ocun_973 ,
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