RetrogeneDB ID: | retro_dnov_2156 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_51630:7699..7952(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SUB1 | ||
| Ensembl ID: | ENSDNOG00000007611 | ||
| Aliases: | None | ||
| Description: | SUB1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:19985] |
Retrocopy-Parental alignment summary:
>retro_dnov_2156
ACTGGTGAAACCTCAAGAGCCCTGTTATCTTGCAAGCAGAGCAGCAGCAGAGATAAACATGTTTCATATTGGAAAAATGA
GGATTGTCCGTGGTTGGGACGTCATAGGGAGAGTCCTAACTGATATTAGAGAATATTGGATGATCCAGAAGGGTGAAATG
AAACCAGGAAGAAAAGGTATTTCTTGAAATTCTGAATAATGGAACCAGCTGGTGGAACAGATTTCTGACACAGATGATGC
AGTAAAAAAGCTG
ORF - retro_dnov_2156 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.11 % |
| Parental protein coverage: | 67.72 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TGETSRALSSSKQSSSSRDD-NMFQIGKMRYVSVRDFKGKVLIDIREYWMDPEGEMKPGRKGISLNPEQW |
| TGETSRAL.S.KQ..SS..D.NMF.IGKMR.V...D..G.VL.DIREYWM...GEMKPGRKGIS.N.E.W | |
| Retrocopy | TGETSRALLSCKQ--SSSRD>NMFHIGKMRIVRGWDVIGRVLTDIREYWMIQKGEMKPGRKGIS*NSE*W |
| Parental | SQLKEQISDIDDAVRKL |
| .QL.EQISD.DDAV.KL | |
| Retrocopy | NQLVEQISDTDDAVKKL |
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 | 82 .65 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 62 .82 RPM |
| SRP012922_heart | 0 .00 RPM | 75 .18 RPM |
| SRP012922_kidney | 0 .00 RPM | 115 .27 RPM |
| SRP012922_liver | 0 .00 RPM | 51 .24 RPM |
| SRP012922_lung | 0 .00 RPM | 114 .70 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 49 .85 RPM |
| SRP012922_spleen | 0 .00 RPM | 203 .97 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_2156 was not experimentally validated.