RetrogeneDB ID: | retro_ocun_812 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 15:83342503..83343025(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SRA1 | ||
| Ensembl ID: | ENSOCUG00000021569 | ||
| Aliases: | None | ||
| Description: | steroid receptor RNA activator 1 [Source:HGNC Symbol;Acc:11281] |
Retrocopy-Parental alignment summary:
>retro_ocun_812
AGAGTCCCCACATCAGAGCTATCTCCTGAGCATCCCCCAATTGGGCCTCCAACTCCAAGTAAGTCTCCCAGGCCTCCATC
TGTGGAGAGCTGTCCTTCCTCTTGTGTGGTGTCAAGTTCCCCAGCCACTGAGCCTGAGGCTCTGTTGGAGGATGTGTTGA
GACCTTTGGACCAGGCACTGAAGGACTGTTGTGGCCACACAAGGCAGCAGCTATGTGATGACATCAGCCGACATCTGGCA
CTGCGGCGGGAACAGTGGGCTGGAGGGAAGCTCTCAGTGCCTGTAAACAAGAGGATGGTTCTGCTGGCGCAAGAGCTTTC
AAGCCTCCAGTGGGATGCAGCAGATGACATCCGCCGCTCACTTGTGGTTGACCATGTGACTGAAGTCAGTCAGTGGATGG
TGGGAGTTAAAAGATTAATTGCAGAAAAAAAAAAAAGCCTACCTTCAGAGGAGGCAGCCAATGAAGAAAAATCGGCAGCT
GCAGCTGAGAATGAGACCATGTCAGGCCTTCAACAAGCTCCA
ORF - retro_ocun_812 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.57 % |
| Parental protein coverage: | 74.04 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RVPTSELSPGHPPVGPPPPSKAPGPPPVESCPSSCVVPTSSPVIEPEALLEDVLRPLEQALKDCHGHTRK |
| RVPTSELSP.HPP.GPP.PSK.P.PP.VESCPSSCVV..SSP..EPEALLEDVLRPL.QALKDC.GHTR. | |
| Retrocopy | RVPTSELSPEHPPIGPPTPSKSPRPPSVESCPSSCVV-SSSPATEPEALLEDVLRPLDQALKDCCGHTRQ |
| Parental | QLCDDISRRLVLLREQWAGGKLSVPVKKRMALLVQELSSRQWDAADDIHRSLMVDHVTEVSQWMVGVKRL |
| QLCDDISR.L.L.REQWAGGKLSVPV.KRM.LL.QELSS.QWDAADDI.RSL.VDHVTEVSQWMVGVKRL | |
| Retrocopy | QLCDDISRHLALRREQWAGGKLSVPVNKRMVLLAQELSSLQWDAADDIRRSLVVDHVTEVSQWMVGVKRL |
| Parental | IAEK-RSLSSEEAAKEEKSAAATENETMSGLQQAP |
| IAEK..SL.SEEAA.EEKSAAA.ENETMSGLQQAP | |
| Retrocopy | IAEKKKSLPSEEAANEEKSAAAAENETMSGLQQAP |
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 | 22 .08 RPM |
| SRP017611_kidney | 0 .00 RPM | 26 .15 RPM |
| SRP017611_liver | 0 .00 RPM | 10 .41 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_812 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_812 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_812 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000016613 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000021569 | 1 retrocopy |
retro_ocun_812 ,
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