RetrogeneDB ID: | retro_dnov_283 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_3260:33802..34040(+) | ||
| Located in intron of: | ENSDNOG00000008453 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PDCD5 | ||
| Ensembl ID: | ENSDNOG00000004010 | ||
| Aliases: | None | ||
| Description: | programmed cell death 5 [Source:HGNC Symbol;Acc:8764] |
Retrocopy-Parental alignment summary:
>retro_dnov_283
GAGGAGCTGGAGGCGCTGAGGAAGCAGAGGCTGGCGGAGCTGCAGGTGAAGCCCCGGGATCCTAGCGATGCTGCTCAACA
GGAAGCAAAGCACTGGGAAGCAGCAATGAGAAACAGTACGCTAGGCCAAGTTCTGCAGCGGTCAGCCTGGGCCAGGCTAA
GTAACTGACCACTTGTGAAGCCAGAGGGAAAAATGCAGTAGAGAATTACCTTATACAGACGCAAGATCTGGCCAACTA
ORF - retro_dnov_283 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 76.83 % |
| Parental protein coverage: | 64.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | EELEALRKQRLAELQAKHGDPSDAAQQEAKHREAEMRNSILAQVLDQSARARLSNLALVKPE-KTKAVEN |
| EELEALRKQRLAELQ.K..DPSDAAQQEAKH.EA.MRNS.L.QVL..SA.ARLSN..LVKPE....AVEN | |
| Retrocopy | EELEALRKQRLAELQVKPRDPSDAAQQEAKHWEAAMRNSTLGQVLQRSAWARLSN*PLVKPE<GKNAVEN |
| Parental | YLIQM-ARYGQL |
| YLIQ..AR.GQL | |
| Retrocopy | YLIQT<ARSGQL |
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 | 29 .17 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 33 .40 RPM |
| SRP012922_heart | 0 .00 RPM | 39 .91 RPM |
| SRP012922_kidney | 0 .00 RPM | 39 .43 RPM |
| SRP012922_liver | 0 .15 RPM | 18 .58 RPM |
| SRP012922_lung | 0 .00 RPM | 35 .13 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 36 .35 RPM |
| SRP012922_spleen | 0 .11 RPM | 31 .13 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_283 was not experimentally validated.