RetrogeneDB ID: | retro_dnov_2643 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_93820:8025..8359(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000023580 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | POP5 | ||
| Ensembl ID: | ENSDNOG00000012668 | ||
| Aliases: | None | ||
| Description: | processing of precursor 5, ribonuclease P/MRP subunit (S. cerevisiae) [Source:HGNC Symbol;Acc:17689] |
Retrocopy-Parental alignment summary:
>retro_dnov_2643
CGTCCCCATGCGGGACTTTCATGAAGCCAAAGCTTCGTGGGCTTTGCAGTGAGCTCCCTCAGCGCCTACACTGGAATAGT
GCTAACACCATGCCCGACGGAAGTCTGCAGCTTGTGTGGCCAGCGCTTCCCTTCATCACATTCTTGGAAAACAAAGGACG
CCGCTTGCCTTGTTTTTCAACACCTTGCACGGGGGAGGTACAATTAGAACACGTCAGAGGTGCCTGGTTCAGTATCACAG
GAGGCAACTGTTGGTCTTGTTGCAGAACTGCACTGATGCAGGAGAGCAGGAGGCGATCCAGAGAGCTGTCACAAGAAGCT
CTTTGCTAGAGGAG
ORF - retro_dnov_2643 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.91 % |
| Parental protein coverage: | 65.88 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | RVHGTFGAAACSIGFAVRYLNAYTGIVLLRCRKEF-YQLVWSALPFITYLENKGHRYPC-FFNTLHVGGT |
| R.H..........GFAV..L.AYTGIVL..C..E...QLVW.ALPFIT.LENKG.R.PC.FFNTLH.GGT | |
| Retrocopy | RPHAGLS*SQSFVGFAVSSLSAYTGIVLTPCPTEV<LQLVWPALPFITFLENKGRRLPC<FFNTLHGGGT |
| Parental | IRTCQKFLIQYNRRQLLILLQNCNDEGQREAIQKSVTKSSLLEE |
| IRT.Q..L.QY.RRQLL.LLQNC.D.G..EAIQ..VT.SSLLEE | |
| Retrocopy | IRTRQRCLVQYHRRQLLVLLQNCTDAGEQEAIQRAVTRSSLLEE |
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 | 16 .34 RPM |
| SRP012922_cerebellum | 0 .55 RPM | 11 .82 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .09 RPM |
| SRP012922_kidney | 0 .00 RPM | 7 .12 RPM |
| SRP012922_liver | 0 .00 RPM | 5 .42 RPM |
| SRP012922_lung | 0 .00 RPM | 12 .68 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .87 RPM |
| SRP012922_spleen | 0 .00 RPM | 19 .57 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_2643 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000012668 | 1 retrocopy |
retro_dnov_2643 ,
|
| Echinops telfairi | ENSETEG00000009283 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000006138 | 1 retrocopy |