RetrogeneDB ID: | retro_ocun_1096 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 2:52822919..52823309(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NOL7 | ||
| Ensembl ID: | ENSOCUG00000007251 | ||
| Aliases: | None | ||
| Description: | nucleolar protein 7, 27kDa [Source:HGNC Symbol;Acc:21040] |
Retrocopy-Parental alignment summary:
>retro_ocun_1096
AAAAAAATTCTTTCCTTTTCTATTCTAGAGGAGTTAACAGTTTTACAGATTAACATAAAAAAATTGCCAGGACAGTTTGA
AAGGTTAATGTGAGAAACAAAATGAAGAATGTGAAAAAGGAAGTGACTCCAAGAAAATTAAAGGGCAAAAAATACAGTCT
GTGAGCCACAATAAATATGTAGCTCTGAAGCTACAAGTACAATAACTGAAAGATTTCAGGCAGTGAGTAGCCAGGGACTT
CATACATGAATCTTTATATGGCCCAAGAACCATAAGAACTATTATAATGAAGCTCCTGTCTCTCCACAACAAGCAGTTTG
CAGTGAAAAAGGCAATAGCCAGTTTTTGAATAATGCTCAGGGAGTTTAGAAAAAGCAAAATGCCCAGAAA
ORF - retro_ocun_1096 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.35 % |
| Parental protein coverage: | 80.12 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | RKLLPDAVLQQLAAAPQTSIKKSPGKLK-EVNL-QKKKEECEKGSDSKKVKVQKVQSVGQNKSYVALRLK |
| .K.L....L..L....Q..IKK.PG.....VN...K..EECEKGSDSKK.K.QK.QSV..NK.YVAL.L. | |
| Retrocopy | KKILSFSILEELTVL-QINIKKLPGQFE<KVNV<EKQNEECEKGSDSKKIKGQKIQSVSHNK-YVALKLQ |
| Parental | DQELRDSRQQAARAFIHESLYGPGTNRTSVNKFLSLDNKRLPVKKAAA-QFLNSAWGTQKKQNAKR |
| .Q.L.D.RQ..AR.FIHESLYGP.T.RT...K.LSL.NK...VKKA.A.QFLN.A.G..KKQNA.. | |
| Retrocopy | VQ*LKDFRQ*VARDFIHESLYGPRTIRTIIMKLLSLHNKQFAVKKAIA<QFLNNAQGV*KKQNAQK |
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 | 26 .38 RPM |
| SRP017611_kidney | 0 .00 RPM | 28 .18 RPM |
| SRP017611_liver | 0 .00 RPM | 19 .65 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1096 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1096 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1096 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000007251 | 3 retrocopies |
retro_ocun_1079, retro_ocun_1096 , retro_ocun_569,
|
| Tarsius syrichta | ENSTSYG00000008153 | 1 retrocopy |