RetrogeneDB ID: | retro_dnov_1981 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_40214:30957..31336(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RAB8B | ||
| Ensembl ID: | ENSDNOG00000023965 | ||
| Aliases: | None | ||
| Description: | RAB8B, member RAS oncogene family [Source:HGNC Symbol;Acc:30273] |
Retrocopy-Parental alignment summary:
>retro_dnov_1981
CTTTTCAAGCTGCTCCTGATCCGGGACTCGGGAGTGGGGAAGGCCTGCGTCCTTTCTCGTTTTTCGGGTGATGCCTTCAA
TACCACCTTTTATTTCCACCAGAGGAATAGACGTTAAGATCAAAACAATTGAATTACAAGGGAAGAAGATCAAGCTACAG
ATACGGGATACAGCAGGCCAGGAGCGATTCCACACCATCACGACCTCCTACTACAGAGGAGCTATGGGTATCATGCTAGT
ACATGACACCACCAATGGTAAAAGTTTTGAAAACATCAGCAAATGGCTTAGAAACATAGATGAGCATGCTAACGAAGATG
TGCAAAGAATGTTACTAGGAAACAAGTGTGATATGGACCATAAAAGAGTTGTGCCTAGA
ORF - retro_dnov_1981 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.8 % |
| Parental protein coverage: | 63.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LFKLLLISDSRVSKTCLLFRFSEDAFNTTF-ISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTA |
| LFKLLLI.DS.V.K.C.L.RFS.DAFNTTF.IST.GID.KI.TIEL.GKKIKLQI.DTAGQERF.TITT. | |
| Retrocopy | LFKLLLIRDSGVGKACVLSRFSGDAFNTTF>ISTRGIDVKIKTIELQGKKIKLQIRDTAGQERFHTITTS |
| Parental | YYRGAMGIMLVYDITNEKSFDNIKNWIRNIEEHASSDVERMILGNKCDMNDKRQVSK |
| YYRGAMGIMLV.D.TN.KSF.NI..W.RNI.EHA..DV.RM.LGNKCDM..KR.V.. | |
| Retrocopy | YYRGAMGIMLVHDTTNGKSFENISKWLRNIDEHANEDVQRMLLGNKCDMDHKRVVPR |
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 | 5 .06 RPM | 3 .89 RPM |
| SRP012922_cerebellum | 2 .34 RPM | 2 .34 RPM |
| SRP012922_heart | 2 .78 RPM | 1 .16 RPM |
| SRP012922_kidney | 1 .64 RPM | 1 .10 RPM |
| SRP012922_liver | 1 .55 RPM | 0 .31 RPM |
| SRP012922_lung | 1 .68 RPM | 3 .21 RPM |
| SRP012922_quadricep_muscle | 4 .15 RPM | 0 .87 RPM |
| SRP012922_spleen | 4 .46 RPM | 7 .10 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_1981 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 10 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000007196 | 3 retrocopies | |
| Dasypus novemcinctus | ENSDNOG00000023965 | 3 retrocopies |
retro_dnov_1191, retro_dnov_1981 , retro_dnov_23,
|
| Dasypus novemcinctus | ENSDNOG00000025047 | 1 retrocopy | |
| Microcebus murinus | ENSMICG00000007113 | 1 retrocopy | |
| Sorex araneus | ENSSARG00000005217 | 2 retrocopies |