RetrogeneDB ID: | retro_dnov_2070 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_45559:11874..12385(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DERL3 | ||
| Ensembl ID: | ENSDNOG00000011041 | ||
| Aliases: | None | ||
| Description: | derlin 3 [Source:HGNC Symbol;Acc:14236] |
Retrocopy-Parental alignment summary:
>retro_dnov_2070
CAGTTGGAACTGATCATACCTTTTCCATTGTACTTCAATCCTGAATTAATTTTTAAACGCTTTCGAATATGGAGGTTTAT
CAACAATTTCTTACTCTTTGGGCCAGTTGGATTCAATTTTTTAAAATACAATTTTTCTATATCGTTACTGTCAAATGCTT
AGAAAAAGGCTCTTTCTGAGGTCGGACAGCCGACTTTGTATTTATGTTCCTTTTTGGTGTATTCTTAATGATCCTTTTTG
GTTTGTTTGTGAGCTTAGTTTTCTTGGGTTAGGCCTTTACAATAATGCTTGTGTACGTGTGGAGCCGAAGGAACCCATAC
ATCTGCATGAGCTTCTTTGGTCCTCTAACTTCCAAGCCCCTTTTCCGCCCTGGGTGCTCATGGGCTTTTCATTGTCACTG
GGCATCTCAATCATTGTGGACCTCTTGGGTATTCCAGTTGGGCACATACATTTTTTCTTGGAAGATGTATTTCCAAATGA
GCCATGTAGAATAAGAATTCCGAAAACACCA
ORF - retro_dnov_2070 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.67 % |
| Parental protein coverage: | 86.8 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | QLELLSPFQLYFNPHLVFRKFQIWRLITNFLFF-GPLGFSFFFNMLFVFRYCRML-EEGSFRGRTADFVF |
| QLEL..PF.LYFNP.L.F..F.IWR.I.NFL.F.G.L..S.F.N..F..RYC.ML.E.GSF.GRTADFVF | |
| Retrocopy | QLELIIPFPLYFNPELIFKRFRIWRFINNFLLF>GQLD-SIF*NTIFLYRYCQML>EKGSF*GRTADFVF |
| Parental | MFLFGGFLMILLGFLGSLFFLGQALMAMLVYVWSRRSPQIRVNFFGLLT-FQAPFLPWALMGFSMLLGNS |
| MFLFG.FLMIL.G...SL.FLG.A...MLVYVWSRR.P.I...FFG.LT.FQAPF.PW.LMGFS..LG.S | |
| Retrocopy | MFLFGVFLMILFGLFVSLVFLG*AFTIMLVYVWSRRNPYICMSFFGPLT<FQAPFPPWVLMGFSLSLGIS |
| Parental | ILVDLLGIAVGHIYYFLEDVFPNQPGGKRLLLTP |
| I.VDLLGI.VGHI..FLEDVFPN.P...R...TP | |
| Retrocopy | IIVDLLGIPVGHIHFFLEDVFPNEPCRIRIPKTP |
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 | 9 .14 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .27 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .00 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .55 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .62 RPM |
| SRP012922_lung | 0 .00 RPM | 5 .65 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .17 RPM |
| SRP012922_spleen | 0 .11 RPM | 57 .00 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_2070 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000011041 | 2 retrocopies |
retro_dnov_2070 , retro_dnov_2675,
|
| Sus scrofa | ENSSSCG00000010069 | 1 retrocopy |