RetrogeneDB ID: | retro_dnov_424 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_4567:85366..85724(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | UBE2E2 | ||
| Ensembl ID: | ENSDNOG00000005448 | ||
| Aliases: | None | ||
| Description: | ubiquitin-conjugating enzyme E2E 2 [Source:HGNC Symbol;Acc:12478] |
Retrocopy-Parental alignment summary:
>retro_dnov_424
GCTGGTCCAAAGGGTGATAACACCTATGAATGGAGATCAGCCATCCTAGGGCCTCCCGGATCTGTGTATGAGGGTGGTGT
TCTTTTCCTTGATATCACTTTTACACCAGAATATCCCTTCAAGCTTCCAAAGGTTATGTTTCAGACAAGAATCTCCGACT
GTAATATCACTAGTCAAGGAGCTGTTTGCCTGGACATATTGAAAGACAACTGGAGTGCAGAATTAATTATCTCTAAAGCC
CTCCTTTCTATCTGCTCACTTCTTACAATCAGCAGTCCTGCCTATCCCTTGGTAGGGAGTATTTGCCACTCAGTTCATGA
CCAACAGAGCAGAGCATGACAGAATGGCCAGGCAGTGG
GCTGGTCCAAAGGGTGATAACACCTATGAATGGAGATCAGCCATCCTAGGGCCTCCCGGATCTGTGTATGAGGGTGGTGT
TCTTTTCCTTGATATCACTTTTACACCAGAATATCCCTTCAAGCTTCCAAAGGTTATGTTTCAGACAAGAATCTCCGACT
GTAATATCACTAGTCAAGGAGCTGTTTGCCTGGACATATTGAAAGACAACTGGAGTGCAGAATTAATTATCTCTAAAGCC
CTCCTTTCTATCTGCTCACTTCTTACAATCAGCAGTCCTGCCTATCCCTTGGTAGGGAGTATTTGCCACTCAGTTCATGA
CCAACAGAGCAGAGCATGACAGAATGGCCAGGCAGTGG
ORF - retro_dnov_424 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.83 % |
| Parental protein coverage: | 83.8 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | AGPKGDNIYEWRSTILGPPGSVYEGGVFFLDITFSPDYPFKPPKVTFRTRIYHCNINSQGVICLDILKDN |
| AGPKGDN.YEWRS.ILGPPGSVYEGGV.FLDITF.P.YPFK.PKV.F.TRI..CNI.SQG..CLDILKDN | |
| Retrocopy | AGPKGDNTYEWRSAILGPPGSVYEGGVLFLDITFTPEYPFKLPKVMFQTRISDCNITSQGAVCLDILKDN |
| Parental | WSPALTISKVLLSICSLLTDCNPADPLVGSI-ATQYMTNRAEHDRMARQW |
| WS..L.ISK.LLSICSLLT...PA.PLVGSI.ATQ.MTNRAEHDRMARQW | |
| Retrocopy | WSAELIISKALLSICSLLTISSPAYPLVGSI>ATQFMTNRAEHDRMARQW |
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 | 6 .81 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 13 .33 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .10 RPM |
| SRP012922_kidney | 0 .00 RPM | 6 .84 RPM |
| SRP012922_liver | 0 .00 RPM | 1 .24 RPM |
| SRP012922_lung | 0 .00 RPM | 10 .23 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .98 RPM |
| SRP012922_spleen | 0 .00 RPM | 11 .56 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_424 was not experimentally validated.