RetrogeneDB ID: | retro_ocun_969 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 18:21450284..21451172(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C14orf28 | ||
| Ensembl ID: | ENSOCUG00000008733 | ||
| Aliases: | None | ||
| Description: | chromosome 14 open reading frame 28 [Source:HGNC Symbol;Acc:19834] |
Retrocopy-Parental alignment summary:
>retro_ocun_969
ATGAAGACACTGTTTGAAGAGATCAAAGCATCAGTTAAAAATAACTGTAACCAAGATCGATCGTTTTGGAGGCCTGTTAT
TCCTTGGGGAGGTGTTTTTACTATCAAAGCTGGCCGCAAAGCAGTATCCTGTACACCACTCTATGTTGAAATAAGACTGA
AAAATCCCTGCACCATAGATGGATTCCTGATGTTGTTATATGTCATTCTGAATGAAAATGAAAATTTCCCCAGGGAACTC
TCTCTTCATCTTGGTAGAGAGTTTGTAGACTATTTCCTTTATTTAATGGACACCTACAGCTTTACAACTGTGAAGCTACT
TTGGATTTGGGACAAGATGGAAAAATAGCAATACAAATCTGAAGTTCATAAAGCATCATTAATAATTGATTTATTTGGGA
ATGAACATGATAACTTTACCAAAAATCTGGAAAATCTTATGTCTAGCATTCAAGAGAGTTACTGTTCCAACTGGAGATAC
CCAACTCGAGTGCAGGAAGATCAGCAGCGTACCATTAATATAAATCCTCCCCAAGAAATTCCACATGGAAACTTAATACG
ACTGGCTGTGGCTGAGTTATTCTGTTCCAAGATTGAACTGTGTGAAGAGCGTGGTTGTGGTGGCTTAAGAGAATTTGCCC
AGCGAGTTTTCCGTCACAGGGCACCCCCTTTTGTTGTCTTAAATATGCAGCATTGGAAATCCGAAGATCTGGCATATGTA
CCTTATTATTTGGATTTATCTGATCACAAATATTTATTGGAAGGCGCAACATTATTTAACAAAGATGAGCATCATTATTC
TGCAGCTTTCCAGACTGATGGACATTGGATGCACTATGATGGCCTCAGAAATGTGAACTTAATTTTGTTAAATAAACCCC
CAGAGTTT
ORF - retro_ocun_969 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.28 % |
| Parental protein coverage: | 95.48 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MKTLFEEIKASIKNNYNQDRSFWRPVLPWGGVFTIKAGRKAVSCTPLYVEIRLKNTCTIDGFLMLLYVIL |
| MKTLFEEIKAS.KNN.NQDRSFWRPV.PWGGVFTIKAGRKAVSCTPLYVEIRLKN.CTIDGFLMLLYVIL | |
| Retrocopy | MKTLFEEIKASVKNNCNQDRSFWRPVIPWGGVFTIKAGRKAVSCTPLYVEIRLKNPCTIDGFLMLLYVIL |
| Parental | NENENFPRELSLHLGREFVDYFLYLMDTYSFTTVKLLWIWDKMEKQQYKSEVHKASLIIDLFGNEHDNFT |
| NENENFPRELSLHLGREFVDYFLYLMDTYSFTTVKLLWIWDKMEK.QYKSEVHKASLIIDLFGNEHDNFT | |
| Retrocopy | NENENFPRELSLHLGREFVDYFLYLMDTYSFTTVKLLWIWDKMEK*QYKSEVHKASLIIDLFGNEHDNFT |
| Parental | KNLENLMSTIQESYCSNWRCPTRVQEDQQRTININPPQEIPHGNLIRLAVDELFCSKIELCEERGCGGLR |
| KNLENLMS.IQESYCSNWR.PTRVQEDQQRTININPPQEIPHGNLIRLAV.ELFCSKIELCEERGCGGLR | |
| Retrocopy | KNLENLMSSIQESYCSNWRYPTRVQEDQQRTININPPQEIPHGNLIRLAVAELFCSKIELCEERGCGGLR |
| Parental | EFAQRVFCHGAPPFVVLNMQHWKSEDLAYVPYYLDLSDHKYLLEGATLFNKDEHHYSAAFQIDGHWMHYD |
| EFAQRVF.H.APPFVVLNMQHWKSEDLAYVPYYLDLSDHKYLLEGATLFNKDEHHYSAAFQ.DGHWMHYD | |
| Retrocopy | EFAQRVFRHRAPPFVVLNMQHWKSEDLAYVPYYLDLSDHKYLLEGATLFNKDEHHYSAAFQTDGHWMHYD |
| Parental | GLRNVNLILLNKPPEF |
| GLRNVNLILLNKPPEF | |
| Retrocopy | GLRNVNLILLNKPPEF |
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 | 2 .76 RPM |
| SRP017611_kidney | 0 .00 RPM | 2 .94 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .39 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_969 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_969 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_969 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 | ENSOCUG00000008733 | 1 retrocopy |
retro_ocun_969 ,
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