RetrogeneDB ID: | retro_dnov_904 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_119584:568..1102(-) | ||
| Located in intron of: | None | ||
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_904
TCACGGTCAGAGCCTGAGTGGTAGTATCTGCAGAAGACTCAGAGAGAGCCAGAGCCCCTGCCACTGCCACATGTTTGCCC
CCTCCGACTACCAGACAATGATTATCAGCACCATTGGCGAAATTGCTTTGAATCCTTTAAATATCCTGGGTATCAATTTC
CTGGGAAGACGGCTGAGCCTTTCTATTACCATGGGATGCACAGCTTTATTCTTCCCTCTCCTCAAAATTTGTACTTCAAG
AGCTGGCCTAATTGGCTTCCTCTTCATGCTGAGAGCTCTTGAGGCAGCAAACTTCATTACCATCTACATTTACACTGCTG
CGGTCTACCCTATGGCAATTCGTGCTTTGGGCAGGGAATCAGCGGCTCCCTGTGTCGCATTGGTGCAATGGTGGCACCAT
TCATATCACAGGTTCTTATGAATGCATCATTCCTGGGGGCCCTGTGTCTTTTCTCATCTGTCTGTGTCGCATGTGCCATT
TCTGCATTTACGCTCCCCATTGAGACCAGAGGACAGGCCTTACAGCAAATTAAA
ORF - retro_dnov_904 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.86 % |
| Parental protein coverage: | 78.17 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SRSELE-VVVSAGDSEG-SQSPCHCHMFAPSDYQTMIISTIGEIALNPLNILGINFLGRRLSLSITMGCT |
| SRSE.E.VVVSA.DSE..SQSPCHCHMFAPSDYQTMIISTIGEIALNPLNILGINFLGRRLSLSITMGCT | |
| Retrocopy | SRSEPE<VVVSAEDSER<SQSPCHCHMFAPSDYQTMIISTIGEIALNPLNILGINFLGRRLSLSITMGCT |
| Parental | ALFFLLLKICTSRAGLIGFLFMLRALVAANFITIYIYTAEVYPTAMRAL-GMGISGSLCRIGAMVAPFIS |
| ALFF.LLKICTSRAGLIGFLFMLRAL.AANFITIYIYTA.VYP.A.RAL.G.GISGSLCRIGAMVAPFIS | |
| Retrocopy | ALFFPLLKICTSRAGLIGFLFMLRALEAANFITIYIYTAAVYPMAIRAL<GQGISGSLCRIGAMVAPFIS |
| Parental | QVLMNASFLGALCLFSSVCVACAISAFTLPIETRGRALQQIK |
| QVLMNASFLGALCLFSSVCVACAISAFTLPIETRG.ALQQIK | |
| Retrocopy | QVLMNASFLGALCLFSSVCVACAISAFTLPIETRGQALQQIK |
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_904 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 ,
|