RetrogeneDB ID: | retro_dnov_2149 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_51153:42186..42736(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRPS26 | ||
| Ensembl ID: | ENSDNOG00000024910 | ||
| Aliases: | None | ||
| Description: | mitochondrial ribosomal protein S26 [Source:HGNC Symbol;Acc:14045] |
Retrocopy-Parental alignment summary:
>retro_dnov_2149
GCGCGCTTGGCCGCAAGAGCCGCTCCGAGCCCTCGCCCCGCGCCGCCCTCGGCCACATCCAAGGCCGGCGTGTGCAGCCC
GCGCTGGCGGTGGGCCCCGCAGAGCTCTTAGTGCTGATGGAGCACTCCCGGGAGTACCGCCGGACGGTGCGCGCCCTCAG
GCTGGAGTTTGTGGCTGAGGTGAGGAAGAAGGTGCTGGAAACCCGGGCAGGGGTTCTGGCGGAGCGCAAAGCCCGGGAGC
ACGCCGCTGAGCACCGGGAGCTGATGACCCGGAACCGGGCGGAGAACCAGCGGCTGCACGAGCTGCTGCGGCTGGCGAGG
CTGCAGCAGGAGGCGCGGGGGCACGAGCAGCGGCAGGCGGAGAAGAAGACCTGCCCGGCCCTCAAGGCTCAGGCCGGGGC
GCAGCTCAAGAGCGGGAAGTGCTTCAGCTGCAGGAGGAGGCGAGAAACTTAACCTCCCGAGAGAACCTGGATGCCCAGGT
GGAGGAAGCATGGGACTCACCAAAGAGCTTTAACTGGGCGCTCACGAGAGAGGGGCTGCTGCTCAAGCCA
ORF - retro_dnov_2149 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.58 % |
| Parental protein coverage: | 89.66 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | ALLVVPARGSKSRHDPPAKSKAG-RXXXXPAVDPAELLVLTERYREYL-TVRALRLEFVAEVRKKVHEAR |
| A.L...A..S.....P.A.SKAG.R.....AV.PAELLVL.E..REY..TVRALRLEFVAEVRKKV.E.R | |
| Retrocopy | ARLAARAAPSPRPAPPSATSKAG<RVQPALAVGPAELLVLMEHSREYRRTVRALRLEFVAEVRKKVLETR |
| Parental | AGVLAERKARENAAEHRELMSWNQAENQRLHE-LRLARLLQEAREQEQRQAEKKACQAREAQAWAQLK-E |
| AGVLAERKARE.AAEHRELM..N.AENQRLHE.LRLARL.QEAR..EQRQAEKK.C.A..AQA.AQLK.E | |
| Retrocopy | AGVLAERKAREHAAEHRELMTRNRAENQRLHELLRLARLQQEARGHEQRQAEKKTCPALKAQAGAQLK<E |
| Parental | REVLQLQEEAKNFITRENLDARVEEALDSPKSYNWALTREGLPVRP |
| REVLQLQEEA.N...RENLDA.VEEA.DSPKS.NWALTREGL...P | |
| Retrocopy | REVLQLQEEARNLTSRENLDAQVEEAWDSPKSFNWALTREGLLLKP |
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 | 22 .75 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 25 .98 RPM |
| SRP012922_heart | 0 .00 RPM | 30 .40 RPM |
| SRP012922_kidney | 0 .00 RPM | 35 .87 RPM |
| SRP012922_liver | 0 .00 RPM | 21 .05 RPM |
| SRP012922_lung | 0 .00 RPM | 21 .38 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 26 .65 RPM |
| SRP012922_spleen | 0 .00 RPM | 29 .19 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_2149 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 5 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000024910 | 2 retrocopies |
retro_dnov_2149 , retro_dnov_780,
|
| Felis catus | ENSFCAG00000028185 | 1 retrocopy | |
| Loxodonta africana | ENSLAFG00000007936 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000037740 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000027041 | 1 retrocopy |