RetrogeneDB ID: | retro_ocun_1911 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | X:111685361..111685732(+) | ||
| Located in intron of: | None | ||
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_1911
GAGGCCACCCTGAATTGCTGCTCTGATGTGGATTCCAGCACCAAGGATTTTTTATTGCAACAGACCATGCCACAAATTAA
GGATTCCAAGAAGTCATTAGATTTCTATCCTTGATTTATTGGAATGATGCTAATCTAAAAAATTAGATTTTTCTTCTATG
AAATTTTCACTCTATTTCTTCGCATAGGAGGATAAAAATGACACCCCCAAAGATAAAAATGAAAGAATAGCATGGGCATT
TTTCCAGAAAAGCTATCCTTGAGCTGACACACAATTGAGGAACTGAAGATGTTGAGATCCAGAGTTACCACAGTGGCAAT
TCAGACCCTTGAAGATTTGGTTACATTGGAATTGCTGTTTCTAATGTGCAT
ORF - retro_ocun_1911 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.4 % |
| Parental protein coverage: | 65.78 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | EAAASCCSDADPSTKDFLMQQTMLRIKDPKKSLDFYTRILGMTLI-QKLDFPSMKFSLYFMAYEDKNDIP |
| EA...CCSD.D.STKDFL.QQTM..IKD.KKSLDFY....GM.LI..KLDF.SMKFSLYF.A.EDKND.P | |
| Retrocopy | EATLNCCSDVDSSTKDFLLQQTMPQIKDSKKSLDFYP*FIGMMLI>KKLDFSSMKFSLYFFA*EDKNDTP |
| Parental | KDKNERVAWAF-SRKATLELTHNWGTEDDETQSYHSGNSDPRGFGHIGIAVPDVY |
| KDKNER.AWAF.SRKA.LELTHN.GTED.E.QSYHSGNSDP..FG.IGIAV..V. | |
| Retrocopy | KDKNERIAWAF>SRKAILELTHN*GTEDVEIQSYHSGNSDP*RFGYIGIAVSNVH |
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 | 71 .52 RPM |
| SRP017611_kidney | 0 .00 RPM | 86 .05 RPM |
| SRP017611_liver | 0 .00 RPM | 89 .41 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1911 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1911 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1911 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,
|