RetrogeneDB ID: | retro_dnov_181 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_2374:218516..218860(+) | ||
| Located in intron of: | ENSDNOG00000011607 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ADI1 | ||
| Ensembl ID: | ENSDNOG00000007523 | ||
| Aliases: | None | ||
| Description: | acireductone dioxygenase 1 [Source:HGNC Symbol;Acc:30576] |
Retrocopy-Parental alignment summary:
>retro_dnov_181
CTGGATGTTGACAAACATGAGAATGATCCAGAACTAGAAAAGACCCAAAAAGAGGGAAACTACTCCTAGGTGGACATACT
AATCAGAAGCAAAGATAAACCACCAAGTTATGAAGAAAAGATTAAATGTTTTATGAAGACCATTTACCCTTTGATGATGA
AATTCAATTTATCTTGGATGGAAGTGGATATTTTGATGTAATGGATAAAGAGGACTAGTGAATCCAGATTTTCATGGAGA
AAGAAGACAGGATAATACTTTCTGCAGCAATTTATCACTGCTTCACACTGGATGAAAAGAACTATGCAAAGTAGTTGTTT
GCTGGAGAACTACTGTGGACAGCC
ORF - retro_dnov_181 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.49 % |
| Parental protein coverage: | 84.17 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LDADKYENDPELEKIRKERNYSWMDIITICKDKLPNYEEKIK-MFYEEHLHLDDEIRYILDGSGYFDVRD |
| LD.DK.ENDPELEK..KE.NYS..DI....KDK.P.YEEKIK.MFYE.HL..DDEI..ILDGSGYFDV.D | |
| Retrocopy | LDVDKHENDPELEKTQKEGNYS*VDILIRSKDKPPSYEEKIK<MFYEDHLPFDDEIQFILDGSGYFDVMD |
| Parental | KEDKWIRIFMEKGDMITLPAGIYHRFTLDEKNYVKAMRLFVGEPVWTA |
| KED..I.IFMEK.D.I.L.A.IYH.FTLDEKNY.K...LF.GE..WTA | |
| Retrocopy | KED**IQIFMEKEDRIILSAAIYHCFTLDEKNYAK--*LFAGELLWTA |
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 .19 RPM | 14 .00 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 14 .43 RPM |
| SRP012922_heart | 0 .00 RPM | 8 .59 RPM |
| SRP012922_kidney | 0 .27 RPM | 25 .46 RPM |
| SRP012922_liver | 0 .00 RPM | 53 .25 RPM |
| SRP012922_lung | 0 .31 RPM | 19 .40 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 9 .87 RPM |
| SRP012922_spleen | 0 .00 RPM | 14 .65 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_181 was not experimentally validated.