RetrogeneDB ID: | retro_dnov_351 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_3899:284694..285012(-) | ||
| Located in intron of: | ENSDNOG00000024518 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | PDCD10 | ||
| Ensembl ID: | ENSDNOG00000015854 | ||
| Aliases: | None | ||
| Description: | programmed cell death 10 [Source:HGNC Symbol;Acc:8761] |
Retrocopy-Parental alignment summary:
>retro_dnov_351
AAGGCATGAGTACTTAAATAAATTCTCAGTAAAATCACAGATGAGATCAGTGACTGAATAAGGCTGCAGACAATTAAGGA
TATAGCTAGTGCAGTAAAGGAACTTCTTGATTCAGTAAATGATGTCTTCAAGAAATATCAATACCAGAACTGCAGGACAG
CTGAATACCAAAAGAAAGATTTTGTAAAATATTCCAAAAGTTTTAGTGATACTCTGAAAACCTATTTTAAAGATGGCAAG
GCAATAAATGTGTTCTTAAGTGCCAGCCAACGAATTCATCAAACCAACCTGATACTTCAGACCTTCAAAACTGTGGCC
AAGGCATGAGTACTTAAATAAATTCTCAGTAAAATCACAGATGAGATCAGTGACTGAATAAGGCTGCAGACAATTAAGGA
TATAGCTAGTGCAGTAAAGGAACTTCTTGATTCAGTAAATGATGTCTTCAAGAAATATCAATACCAGAACTGCAGGACAG
CTGAATACCAAAAGAAAGATTTTGTAAAATATTCCAAAAGTTTTAGTGATACTCTGAAAACCTATTTTAAAGATGGCAAG
GCAATAAATGTGTTCTTAAGTGCCAGCCAACGAATTCATCAAACCAACCTGATACTTCAGACCTTCAAAACTGTGGCC
ORF - retro_dnov_351 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.37 % |
| Parental protein coverage: | 50.71 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EARALKQILSKIPDEINDRVRFLQTIKDIASAIKELLDTVNNVFKKYQYQNRRALEHQKKEFVKYSKSFS |
| .A..LK.ILSKI.DEI.D..R.LQTIKDIASA.KELLD.VN.VFKKYQYQN.R..E.QKK.FVKYSKSFS | |
| Retrocopy | KA*VLK*ILSKITDEISD*IR-LQTIKDIASAVKELLDSVNDVFKKYQYQNCRTAEYQKKDFVKYSKSFS |
| Parental | DTLKTYFKDGKAINVFISANRLIHQTNLILQTFKTVA |
| DTLKTYFKDGKAINVF.SA...IHQTNLILQTFKTVA | |
| Retrocopy | DTLKTYFKDGKAINVFLSASQRIHQTNLILQTFKTVA |
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 |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 24 .50 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 13 .20 RPM |
| SRP012922_heart | 0 .00 RPM | 8 .59 RPM |
| SRP012922_kidney | 0 .00 RPM | 14 .78 RPM |
| SRP012922_liver | 0 .00 RPM | 16 .25 RPM |
| SRP012922_lung | 0 .00 RPM | 28 .86 RPM |
| SRP012922_quadricep_muscle | 0 .69 RPM | 6 .58 RPM |
| SRP012922_spleen | 0 .00 RPM | 32 .62 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_351 was not experimentally validated.