RetrogeneDB ID: | retro_ocun_1894 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | X:64025756..64026170(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOCUG00000020968 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DCTN3 | ||
| Ensembl ID: | ENSOCUG00000000358 | ||
| Aliases: | None | ||
| Description: | dynactin 3 (p22) [Source:HGNC Symbol;Acc:2713] |
Retrocopy-Parental alignment summary:
>retro_ocun_1894
GGGTTGGGTTGGGCACATAAGGTAGCTTACGGCCTGGTCAAGGTGAAGGTGGCTTTGGGGGACATACCTAACAGGCAAAA
GAAGGTGAAGATTCTGTACAAACAAGTTGAAGACCTGATCAATACCTGGATCCTGAGGACATCAACTGCAGGGCCATTAT
CTGATGCCTTTGAGCTGCAGTTCATCTTAACAGAGGAGCAGCTTCTCTTCTCCCTGGCTGCACAACTGGCGCAGGTAGAC
GCCTTGGCTCCCATACTGGACAGTGCTCAGTTCAAAGCCGTTCCTGAGCATGACACCTGCCTGTGGCTCTTGGCCCAGAT
CCACATCCGCCAGCAGGATCAGTGGATGCAGATCCCAGAGGAGTCCAAAGCTCTCCTGGAGAACTACAAGACTACGATGC
TGCTCTCCAAGCAA
ORF - retro_ocun_1894 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.54 % |
| Parental protein coverage: | 74.73 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | GVRGSRKVADGLVKVQVALGNIASKRERVKILYKKIEDLI-KYLDPEYIDRIAI-PDASKLQFILAEEQF |
| G.....KVA.GLVKV.VALG.I......VKILYK..EDLI..YLDPE.I...AI..DA..LQFIL.EEQ. | |
| Retrocopy | GLGWAHKVAYGLVKVKVALGDIPNRQKKVKILYKQVEDLI<QYLDPEDINCRAI>SDAFELQFILTEEQL |
| Parental | ILAQVALLEQVDALVPMLDSAHIKAVPEHAARLQRLAQIHIQQQDQCMEITEESKALLEEYNKTTMLLSK |
| .....A.L.QVDAL.P.LDSA..KAVPEH...L..LAQIHI.QQDQ.M.I.EESKALLE.Y.KTTMLLSK | |
| Retrocopy | LFSLAAQLAQVDALAPILDSAQFKAVPEHDTCLWLLAQIHIRQQDQWMQIPEESKALLENY-KTTMLLSK |
| Parental | Q |
| Q | |
| Retrocopy | Q |
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 | 44 .21 RPM |
| SRP017611_kidney | 0 .00 RPM | 42 .57 RPM |
| SRP017611_liver | 0 .00 RPM | 7 .25 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1894 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1894 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1894 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000000358 | 1 retrocopy |
retro_ocun_1894 ,
|
| Rattus norvegicus | ENSRNOG00000014208 | 1 retrocopy |