RetrogeneDB ID: | retro_dnov_594 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_6641:10578..11192(-) | ||
| Located in intron of: | ENSDNOG00000002158 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SVOPL | ||
| Ensembl ID: | ENSDNOG00000006558 | ||
| Aliases: | None | ||
| Description: | SVOP-like [Source:HGNC Symbol;Acc:27034] |
Retrocopy-Parental alignment summary:
>retro_dnov_594
TGGCTGGGAATCGCTTTCGCCTATACGGTAGTCATCCTGGCCAGTGCCGAGTTGATGGAGAGGGAACTGGTCTGTGGTTC
ACGGTCAGAGCCTGAGGTGGTAGTATCTGCAGAAGACTCAGAGGGGAGCCAGAGCCCCTGCCACTGCCACATGTTTGCCC
CCTCCGACTACCAAACAATGATTATCAGCACCATTGGCGAAATTGCTTTGAATCCTTTAAATATCCTGGGAATCAATTTC
CTGGGAAGACGGCTGATCCTTTCTATTACCATGGGATGCACAGCTTTATTCTTCCCTCTCCTCAAAATTTGTACTTCAAG
AGCTGGCCTAATTGGCTTCCTCTTCATGCTGAGAGCTCTTGAGGCAGCAAACTTCATTACCATCTACATTTACACTGCTG
CGGTCTACCCTATGGCAATTCGTGCTTTGGGCAGGGAATCAGCGGCTCCCTGTGTCGCATTGGTGCAATGGTGGCACCAT
TCATATCACAGGTTCTTATGAATGCATCATTCCTGGGGGCCCTGTGTCTTTTCTCATCTGTCTGTGTCGCATGTGCCATT
TCTGCATTTACGCTCCCCATTGAGACCAGAGGACAGGCCTTACAGCAAATTAAA
ORF - retro_dnov_594 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.23 % |
| Parental protein coverage: | 89.52 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | WLGISFAYYGVILASAELLERDLVCGSRSELEVVVSAGDSEGSQSPCHCHMFAPSDYQTMIISTIGEIAL |
| WLGI.FAY..VILASAEL.ER.LVCGSRSE.EVVVSA.DSEGSQSPCHCHMFAPSDYQTMIISTIGEIAL | |
| Retrocopy | WLGIAFAYTVVILASAELMERELVCGSRSEPEVVVSAEDSEGSQSPCHCHMFAPSDYQTMIISTIGEIAL |
| Parental | NPLNILGINFLGRRLSLSITMGCTALFFLLLKICTSRAGLIGFLFMLRALVAANFITIYIYTAEVYPTAM |
| NPLNILGINFLGRRL.LSITMGCTALFF.LLKICTSRAGLIGFLFMLRAL.AANFITIYIYTA.VYP.A. | |
| Retrocopy | NPLNILGINFLGRRLILSITMGCTALFFPLLKICTSRAGLIGFLFMLRALEAANFITIYIYTAAVYPMAI |
| Parental | RAL-GMGISGSLCRIGAMVAPFISQVLMNASFLGALCLFSSVCVACAISAFTLPIETRGRALQQIK |
| RAL.G.GISGSLCRIGAMVAPFISQVLMNASFLGALCLFSSVCVACAISAFTLPIETRG.ALQQIK | |
| Retrocopy | RAL<GQGISGSLCRIGAMVAPFISQVLMNASFLGALCLFSSVCVACAISAFTLPIETRGQALQQIK |
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 | 0 .19 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .69 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .70 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .82 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .15 RPM |
| SRP012922_lung | 0 .00 RPM | 1 .22 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 1 .04 RPM |
| SRP012922_spleen | 0 .00 RPM | 1 .26 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_594 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000012965 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000006558 | 2 retrocopies |
retro_dnov_594 , retro_dnov_904,
|