RetrogeneDB ID: | retro_ocun_1568 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | GL018700:8052199..8052585(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DNAJC12 | ||
| Ensembl ID: | ENSOCUG00000008694 | ||
| Aliases: | None | ||
| Description: | DnaJ (Hsp40) homolog, subfamily C, member 12 [Source:HGNC Symbol;Acc:28908] |
Retrocopy-Parental alignment summary:
>retro_ocun_1568
AAGAGTCAAGCCTGTTATGACCACTGGAGAAGGAGTCAGATGCTGAAGCCATTTCTACATGGGAAGCTTTGACTGACTCA
GTGAAAACATCAATGCAGTGGGCTGCTAGAGGTAAAAAGAATCTGATGTTGGAGGAAGCTGATCAGACTCACACAAACAA
GATTGAAAATGAGAACTGGAATGAACAAAGAGAAATAACAGAAGATGAAATGGTTCCAATCACAGAAAAAATTAAGCAAA
ATGAGTCTGAGTCCCTAGAGAAGTCAAGCTCACAGCAAAATCCAGATTCTCAAAGTTTTTCCAGCATGAACTGTTGGCAC
TTTCGTTTCCACTGGCCCAGGTATGCTCCTTCAGAACTCCTGAGAAAGTTCAGATACTATAAAATA
ORF - retro_ocun_1568 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.85 % |
| Parental protein coverage: | 65.15 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ESRARYDHWRRSQMSIPF-QQWEALTDSVKTSMHWAVRGKKDLMLEESDQTHTNKIGNEDWDKQREIKEE |
| .S.A.YDHWRRSQM..PF...WEALTDSVKTSM.WA.RGKK.LMLEE.DQTHTNKI.NE.W..QREI.E. | |
| Retrocopy | KSQACYDHWRRSQMLKPF<STWEALTDSVKTSMQWAARGKKNLMLEEADQTHTNKIENENWNEQREITED |
| Parental | EMGPTTEKMKKKECESLEKSSSQQNPDSPSFSDVNCWHLRFRWSGGAPSELLRKFRNYEI |
| EM.P.TEK.K..E.ESLEKSSSQQNPDS.SFS..NCWH.RF.W...APSELLRKFR.Y.I | |
| Retrocopy | EMVPITEKIKQNESESLEKSSSQQNPDSQSFSSMNCWHFRFHWPRYAPSELLRKFRYYKI |
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 | 66 .56 RPM |
| SRP017611_kidney | 0 .00 RPM | 77 .84 RPM |
| SRP017611_liver | 0 .00 RPM | 14 .41 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1568 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1568 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1568 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 | |
|---|---|---|---|
| Loxodonta africana | ENSLAFG00000009276 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000008694 | 1 retrocopy |
retro_ocun_1568 ,
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