RetrogeneDB ID: | retro_dnov_1180 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_158963:594..1083(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | REEP1 | ||
| Ensembl ID: | ENSDNOG00000011015 | ||
| Aliases: | None | ||
| Description: | receptor accessory protein 1 [Source:HGNC Symbol;Acc:25786] |
Retrocopy-Parental alignment summary:
>retro_dnov_1180
TTGGTGTTTGGAATGCTTTTTCCTGTCTATTATTCATACAAAGCTGTGAAGACAAAAAACGTGAAGGAATATGTCCGGTG
GATGATGTACTGGATTGTTTTTGCTCTCTATACCGTGATTGAAACGGTGGCAGATCAAACAGTGGCTTGGTTTCCCCTGT
ATTACGAATTTAAGATCGCTTTTGTCATGTGGCTGCTCTCTCCCAATACCAAAGGAGCAAGTTTACTATATAGAAAATTC
CTTCATCCATTTATTTCTTCAAAGGAAAGGGAGGTTGAAGAATATATCATACAAGCAAAGGAACGAGGCTATGAGACTAT
GGTGAACTTGGGACGGCAAGGTTTAAACTTCACTGCTCCTGCTGTGCTCACTGCAGCAGTGAAGAGCCAAAGAGCCCTAA
CGGAATGTTTAAGAAGGTTCAGCACCCATAACTTAACAGCTATTCAAGTTGATGAGCCCGTGGGACAAACACCATATGGA
CCTCTACCA
TTGGTGTTTGGAATGCTTTTTCCTGTCTATTATTCATACAAAGCTGTGAAGACAAAAAACGTGAAGGAATATGTCCGGTG
GATGATGTACTGGATTGTTTTTGCTCTCTATACCGTGATTGAAACGGTGGCAGATCAAACAGTGGCTTGGTTTCCCCTGT
ATTACGAATTTAAGATCGCTTTTGTCATGTGGCTGCTCTCTCCCAATACCAAAGGAGCAAGTTTACTATATAGAAAATTC
CTTCATCCATTTATTTCTTCAAAGGAAAGGGAGGTTGAAGAATATATCATACAAGCAAAGGAACGAGGCTATGAGACTAT
GGTGAACTTGGGACGGCAAGGTTTAAACTTCACTGCTCCTGCTGTGCTCACTGCAGCAGTGAAGAGCCAAAGAGCCCTAA
CGGAATGTTTAAGAAGGTTCAGCACCCATAACTTAACAGCTATTCAAGTTGATGAGCCCGTGGGACAAACACCATATGGA
CCTCTACCA
ORF - retro_dnov_1180 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.51 % |
| Parental protein coverage: | 84.29 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LIFGTLYPAYYSYKAVKSKDIKEYVKWMMYWIIFALFTTAETFTDIFLCWFPFYYELKIAFVAWLLSPYT |
| L.FG.L.P.YYSYKAVK.K..KEYV.WMMYWI.FAL.T..ET..D....WFP.YYE.KIAFV.WLLSP.T | |
| Retrocopy | LVFGMLFPVYYSYKAVKTKNVKEYVRWMMYWIVFALYTVIETVADQTVAWFPLYYEFKIAFVMWLLSPNT |
| Parental | KGSSLLYRKFVHPTLSSKEKEIDDCLVQAKDRSYDALVHFGKRGLNVAATAAVMAASKGQGALSERLRSF |
| KG.SLLYRKF.HP..SSKE.E......QAK.R.Y...V..G..GLN..A.A...AA.K.Q.AL.E.LR.F | |
| Retrocopy | KGASLLYRKFLHPFISSKEREVEEYIIQAKERGYETMVNLGRQGLNFTAPAVLTAAVKSQRALTECLRRF |
| Parental | SMQDLTAIRGDGAPG--PSGPPP |
| S...LTAI..D...G..P.GP.P | |
| Retrocopy | STHNLTAIQVDEPVGQTPYGPLP |
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 | 2 .72 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 8 .11 RPM |
| SRP012922_heart | 0 .23 RPM | 0 .70 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .27 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .31 RPM |
| SRP012922_lung | 0 .00 RPM | 1 .53 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 2 .60 RPM |
| SRP012922_spleen | 0 .00 RPM | 1 .95 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_1180 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 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000011015 | 2 retrocopies |
retro_dnov_1180 , retro_dnov_1385,
|