RetrogeneDB ID: | retro_dnov_503 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_5385:417811..418231(-) | ||
| Located in intron of: | ENSDNOG00000006711 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RPL8 | ||
| Ensembl ID: | ENSDNOG00000009300 | ||
| Aliases: | None | ||
| Description: | ribosomal protein L8 [Source:HGNC Symbol;Acc:10368] |
Retrocopy-Parental alignment summary:
>retro_dnov_503
CAGGAGAAGCCTTGTGACCAGGGCAAACTAGTCCAGGCTTAAGTGAATTATATCCCCATCATTTCCCACAATGCTGAGAA
CAAGAAGAGCCTTATAAAGCTGCTCTCAGATTCCAAGAAGGTCATTTCCTCAGCCAACAGAGCTGTGGTTGGCATGGTGG
CTGGGGGAGGCTGCATCGACAAGCCCATCCTGAAGGCTGGCCATGTTTACCACAAGTACAAGGCAAAAAGGAATTGTTGG
CCTTGTGTACAGGATGTGGCCATGAACTCTGTGGAGCATCCCTTTGGAGGTGGCAACCACTAGCATGTTGGTAAGCTTCC
CAAAATCTGCAAAGATGCCCCCGCTGGCCACAAAGTGGGTCTCATTGCTGCCCGTCAGACTGGGTGACTCCGGGAAATCA
GGACTGTGCTGAAAGAGAAC
ORF - retro_dnov_503 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.63 % |
| Parental protein coverage: | 54.86 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EEKPGDRGKLARASGNYATVISHNPETKKTRVKLPSGSKKVISSANRAVVGVVAGGGRIDKPILKAGRAY |
| .EKP.D.GKL..A..NY...ISHN.E.KK...KL.S.SKKVISSANRAVVG.VAGGG.IDKPILKAG..Y | |
| Retrocopy | QEKPCDQGKLVQA*VNYIPIISHNAENKKSLIKLLSDSKKVISSANRAVVGMVAGGGCIDKPILKAGHVY |
| Parental | HKYKAKRNCWPRVRGVAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAARRTGRLRGTKTVQEKE |
| HKYKAKRNCWP.V..VAMN.VEHPFGGGNH.H.GK...I..DAPAG.KVGLIAAR.TG.LR...TV..KE | |
| Retrocopy | HKYKAKRNCWPCVQDVAMNSVEHPFGGGNH*HVGKLPKICKDAPAGHKVGLIAARQTG*LREIRTVL-KE |
| Parental | N |
| N | |
| Retrocopy | N |
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 | 779 .43 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 331 .85 RPM |
| SRP012922_heart | 0 .23 RPM | 344 .33 RPM |
| SRP012922_kidney | 0 .00 RPM | 738 .97 RPM |
| SRP012922_liver | 0 .00 RPM | 407 .92 RPM |
| SRP012922_lung | 0 .15 RPM | 848 .69 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 591 .08 RPM |
| SRP012922_spleen | 0 .11 RPM | 1161 .44 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_503 was not experimentally validated.