RetrogeneDB ID: | retro_ocun_808 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 15:78022423..78022984(+) | ||
| Located in intron of: | ENSOCUG00000006868 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BTBD9 | ||
| Ensembl ID: | ENSOCUG00000017258 | ||
| Aliases: | None | ||
| Description: | BTB (POZ) domain containing 9 [Source:HGNC Symbol;Acc:21228] |
Retrocopy-Parental alignment summary:
>retro_ocun_808
TGTGCGGCCATGGCAGAACCGCAACCTGCGTCCAGCGGCCTCACCGACGAGGCCGCCGCTAGCTGCTGCTCCGACGCGGA
CCCCAGCACCAAGGATTTTTTAATGCAACAGACCATGCTATGAATTAAGGATCCTAAGAAGTCATTGGATTTCTATACTA
GAATTCTTGGAATGACGCTAATCCAAAAATTAGATTTTCCTTCTATGAAATTTTCACTCTATTTCATGGCATATGAGGAT
AAAAATGACATCCCCAAAGATAAAAATGAAAGAGTAGCATGGGCATTTTCCAGAAAAGCTACCCTTGAGCTGACACATAA
TTGGGGCACTGAAGATGATGAGACCCAGAGCTACCACAGTGGCAATTCAGACCCTCGAGGATTTGGTCACATTGGAATTG
CTGTTCCTGATGTGTACGGCGCCTGTAAAAGATCTGAAGAACTGGGAGTCAAATTTGTGAAGAAACCAGACGATGGTAAA
ATGAAAGGCCTGGCATTTATTCGAGATCCTGATGGCTACTGGATTGAAATTTTGAATCCTAACACAATCACAAGTATCAT
T
ORF - retro_ocun_808 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.86 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | CAAMAEPQPASSGLTDEAAASCCSDADPSTKDFLMQQTMLRIKDPKKSLDFYTRILGMTLIQKLDFPSMK |
| CAAMAEPQPASSGLTDEAAASCCSDADPSTKDFLMQQTML.IKDPKKSLDFYTRILGMTLIQKLDFPSMK | |
| Retrocopy | CAAMAEPQPASSGLTDEAAASCCSDADPSTKDFLMQQTML*IKDPKKSLDFYTRILGMTLIQKLDFPSMK |
| Parental | FSLYFMAYEDKNDIPKDKNERVAWAFSRKATLELTHNWGTEDDETQSYHSGNSDPRGFGHIGIAVPDVYG |
| FSLYFMAYEDKNDIPKDKNERVAWAFSRKATLELTHNWGTEDDETQSYHSGNSDPRGFGHIGIAVPDVYG | |
| Retrocopy | FSLYFMAYEDKNDIPKDKNERVAWAFSRKATLELTHNWGTEDDETQSYHSGNSDPRGFGHIGIAVPDVYG |
| Parental | ACKRFEELGVKFVKKPDDGKMKGLAFIQDPDGYWIEILNPNTVTSII |
| ACKR.EELGVKFVKKPDDGKMKGLAFI.DPDGYWIEILNPNT.TSII | |
| Retrocopy | ACKRSEELGVKFVKKPDDGKMKGLAFIRDPDGYWIEILNPNTITSII |
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 .11 RPM | 71 .52 RPM |
| SRP017611_kidney | 0 .10 RPM | 86 .05 RPM |
| SRP017611_liver | 0 .39 RPM | 89 .41 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_808 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_808 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_808 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000017258 | 2 retrocopies |
retro_ocun_1911, retro_ocun_808 ,
|