RetrogeneDB ID: | retro_dnov_274 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_3216:13700..14042(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TIMM17A | ||
| Ensembl ID: | ENSDNOG00000006389 | ||
| Aliases: | None | ||
| Description: | translocase of inner mitochondrial membrane 17 homolog A (yeast) [Source:HGNC Symbol;Acc:17315] |
Retrocopy-Parental alignment summary:
>retro_dnov_274
ACCAGGGCTCCACAGTTGGGAGGTAGCTCTGCAGTTCAGGAATGTTTCTTTTCTATGTTTGACTGCAGTATGGTTCAAGC
CAGAGGGAAAGAAGATCCTTGGAACTCCTTCACAAGTAGTGCCTTAACAGGAGCCAGACTGGCAGCAAGAAATGGACTGG
AGGCCATGGTTGGGACAGGTGGTATTCTCCTAGATTTAATTGTAGGAGCTGGTATTTTGTTGACAAGATTTGCCTCTACA
CAGTTTCCCAATGGTCCTCAGTTTCCTGAAAATCCCTCCCAGGAACTTTCAACTTCAACTCAGTCACCACCCTCACCTTC
TGGAGACTATTGACAATATCAG
ORF - retro_dnov_274 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.21 % |
| Parental protein coverage: | 67.25 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TRAPQLGGSFAVWGGLFSMIDCSMVQVRGKEDPWNSITSGALTGAILAARNGPVAMVGSAAMGGILLALI |
| TRAPQLGGS.AV....FSM.DCSMVQ.RGKEDPWNS.TS.ALTGA.LAARNG..AMVG....GGILL.LI | |
| Retrocopy | TRAPQLGGSSAVQECFFSMFDCSMVQARGKEDPWNSFTSSALTGARLAARNGLEAMVGT---GGILLDLI |
| Parental | EGAGILLTRFASTQFPNGPQFVDDPSQ--LPSTQLPSSPFGDYRQYQ |
| .GAGILLTRFASTQFPNGPQF...PSQ....STQ.P.SP.GDY.QYQ | |
| Retrocopy | VGAGILLTRFASTQFPNGPQFPENPSQELSTSTQSPPSPSGDY*QYQ |
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 | 19 .84 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 9 .35 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .80 RPM |
| SRP012922_kidney | 0 .00 RPM | 5 .48 RPM |
| SRP012922_liver | 0 .00 RPM | 4 .02 RPM |
| SRP012922_lung | 0 .00 RPM | 6 .57 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 5 .71 RPM |
| SRP012922_spleen | 0 .00 RPM | 10 .64 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_274 was not experimentally validated.