RetrogeneDB ID: | retro_dnov_1679 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_2647:138580..138900(-) | ||
| 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: | ENSDNOG00000015368 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_1679
CTCGTGTACCGGGCGCTGCTCTCTGTCCTGGATGATCACGATGTGGATTCTTTCATCTCCCTCTCCTCTTCAGGGATGGA
ACATATGGAGACACAGACTATTTGAAGTGGCTGTTCCCCACCTCCATGCGCTCTAAGGTCTGCGGTATCTGCTGTAGCCC
CTGGGACCAGGATTTCGCCATCCAAAACTACTGGCATGACCCCCACTATGATGTCTTGTACCTCAACGCCAGCAGCTTCC
TGGCCCTGATCAATGGGGAAAGAGACCATCCCAACCCTACCGCATGACTGAAGAACTTTCTCCACGTGGGCCGCCTGGTG
ORF - retro_dnov_1679 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.63 % |
| Parental protein coverage: | 56.61 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LVCRALLSVMDDHNVDSFISLSSPQM-GQYGDTDYLKWLFPTSMRSNLYRICYSPWGQEFSICNYWHDPH |
| LV.RALLSV.DDH.VDSFISLSS..M.G.YGDTDYLKWLFPTSMRS....IC.SPW.Q.F.I.NYWHDPH | |
| Retrocopy | LVYRALLSVLDDHDVDSFISLSSSGM<GTYGDTDYLKWLFPTSMRSKVCGICCSPWDQDFAIQNYWHDPH |
| Parental | HDDLYLNASSFLALINGERDHPNATAWRKNFLRVGRLV |
| .D.LYLNASSFLALINGERDHPN.TA..KNFL.VGRLV | |
| Retrocopy | YDVLYLNASSFLALINGERDHPNPTA*LKNFLHVGRLV |
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 | 9 .33 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 25 .84 RPM |
| SRP012922_heart | 0 .00 RPM | 12 .76 RPM |
| SRP012922_kidney | 0 .00 RPM | 22 .18 RPM |
| SRP012922_liver | 0 .00 RPM | 14 .40 RPM |
| SRP012922_lung | 0 .00 RPM | 20 .16 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 26 .65 RPM |
| SRP012922_spleen | 0 .00 RPM | 23 .46 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_1679 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 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000015368 | 1 retrocopy |
retro_dnov_1679 ,
|
| Tarsius syrichta | ENSTSYG00000002885 | 1 retrocopy |