RetrogeneDB ID: | retro_dnov_142 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_2043:239513..239898(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000010652 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_142
ATGTCGATTTCCTTAGTCCAGGCCACTGTTCCAGCTGTGCGCAAGAGCAAGCTGCAGCCCACCCAGCCTGCCTTCACCCT
GACACCTTCAGCAGTAAACAAGATAAAACAGCATCTTAAAGAGAAGCCTGAAGATGTAGGTATGAAAGTTGGTGGACGAA
CCAAGGGTTGTAATGTCCTTTCTTACATTCTAGATTGCACAAAGACAAAAGGAGACTGATGAAGAAGTTGTTCAAGGTGG
AGTCAGAGTGTTCACTGAAAAGAAAGCACAGCTAACACTTTTAGGAACAAGAGTGGATTATGTAGAAGACAAATTATCCA
GGGAGTTTGTACTCAATAACCCAAACATCAAAGGAGCTTGTGGCTGTGGAGAAAGCTTTACTATT
ORF - retro_dnov_142 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.38 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MSASLVRATVRAVSR-KLQPTRAALTLTSSAVNKIKQLLKDKPEHVGVKVGVRTRGCNGLSYTLDYTKTK |
| MS.SLV.ATV.AV...KLQPT..A.TLT.SAVNKIKQ.LK.KPE.VG.KVG.RT.GCN.LSY.LD.TKTK | |
| Retrocopy | MSISLVQATVPAVRKSKLQPTQPAFTLTPSAVNKIKQHLKEKPEDVGMKVGGRTKGCNVLSYILDCTKTK |
| Parental | GD-SDEEVVQDGVRVFIEKKAQLTLLGTEMDYVEDKLSSEFVFNNPNIKGTCGCGESFNI |
| GD...E.V.Q.GVRVF.EKKAQLTLLGT..DYVEDKLS.EFV.NNPNIKG.CGCGESF.I | |
| Retrocopy | GD>DEEVV-QGGVRVFTEKKAQLTLLGTRVDYVEDKLSREFVLNNPNIKGACGCGESFTI |
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 | 51 .15 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 39 .87 RPM |
| SRP012922_heart | 0 .00 RPM | 105 .57 RPM |
| SRP012922_kidney | 0 .00 RPM | 70 .09 RPM |
| SRP012922_liver | 0 .00 RPM | 43 .35 RPM |
| SRP012922_lung | 0 .00 RPM | 71 .63 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 191 .09 RPM |
| SRP012922_spleen | 0 .00 RPM | 125 .11 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_142 was not experimentally validated.