RetrogeneDB ID: | retro_ocun_1365 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 7:83246164..83246463(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | HAGH | ||
| Ensembl ID: | ENSOCUG00000024657 | ||
| Aliases: | None | ||
| Description: | hydroxyacylglutathione hydrolase [Source:HGNC Symbol;Acc:4805] |
Retrocopy-Parental alignment summary:
>retro_ocun_1365
TTATTGCTTGCCCTGATGGACAGCTACACGTACCTGGTCATGGATGATGATGCCAAGGAGGACACCATTGCAGACCTGAG
TGCAGCCCCAGAAGGTTCTAGACACAGAAAGCACAGGGTGAAGCTGACCACAGTGCTCACCACCCACCATTCCTGGGACC
ACCCTGGTGGGAAATAGAAACTGGTCAAGCAAGAGCTGGGACTGCCGGTGTACAAGGGCAATGATCTGATCCAGCCCTGA
CACACAAGCTCACACACTTGTCCATGTTGCAGGTGGCATCTCTCAACATCAAATGCCTG
ORF - retro_ocun_1365 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 56.86 % |
| Parental protein coverage: | 57.71 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LLPALTDNYMYLVIDDDTKEAAIVDPVQPQKVLDTVRKHGVKLTTVLTTHHHWDHAGGNEKLLKLEPGLK |
| LL.AL.D.Y.YLV..DD...................RKH.VKLTTVLTTHH.WDH.GG..KL.K.E.GL. | |
| Retrocopy | LLLALMDSYTYLVM-DDDAKEDTIADLSAAPEGSRHRKHRVKLTTVLTTHHSWDHPGGK*KLVKQELGLP |
| Parental | VYGGDDRI-GALTHKVTHLSTLQVGSLSVKCL |
| VY.G.D.I..ALTHK.THLS.LQV.SL..KCL | |
| Retrocopy | VYKGNDLI<PALTHKLTHLSMLQVASLNIKCL |
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 | 23 .57 RPM |
| SRP017611_kidney | 0 .00 RPM | 51 .08 RPM |
| SRP017611_liver | 0 .00 RPM | 50 .87 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1365 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1365 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1365 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 | ENSOCUG00000024657 | 1 retrocopy |
retro_ocun_1365 ,
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