RetrogeneDB ID: | retro_dnov_2282 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_6062:3504..3829(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TIMM17B | ||
| Ensembl ID: | ENSDNOG00000025897 | ||
| Aliases: | None | ||
| Description: | translocase of inner mitochondrial membrane 17 homolog B (yeast) [Source:HGNC Symbol;Acc:17310] |
Retrocopy-Parental alignment summary:
>retro_dnov_2282
AGCTTCGCTGTGTGGGGTGGCCTCTTCTCCACCATTTACTGCAGCCTGGTGCAGCTGTGGGGCAAGGAGGATCCCTGGAA
CTCCATCACCATTGGAGCTCTGACCAGGGCTGTGCTGGCTGCCCACGGTGACCCCATTGACCATGTTGGGCTCCGCAATG
ATGGGGGGCATCCTGTTGGCCCTCATTGAGGGTGTCGGCATCCTTCTCACTCGCTACGCTGCTCAGCAGTTCCACAATGC
ACCCCTGTTCCTGGAGGACCCCAGCCAGATGCCCCCCAAGGAGGGTGCCCCTGCCCCAGGCTATCCCAACTACCAGGAGT
ACCAC
ORF - retro_dnov_2282 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.4 % |
| Parental protein coverage: | 62.79 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SFAVWGGLFSTIDCGLVRLRGKEDPWNSITSGALTGAVLAARSGP-LAMVGSAMMGGILLALIEGVGILL |
| SFAVWGGLFSTI.C.LV.L.GKEDPWNSIT.GALT.AVLAA...P.L.M.GSAMMGGILLALIEGVGILL | |
| Retrocopy | SFAVWGGLFSTIYCSLVQLWGKEDPWNSITIGALTRAVLAAHGDP>LTMLGSAMMGGILLALIEGVGILL |
| Parental | TRYTAQQFRNAPPFLEDPSQLPPKEGAPAPGYPNYQQYH |
| TRY.AQQF.NAP.FLEDPSQ.PPKEGAPAPGYPNYQ.YH | |
| Retrocopy | TRYAAQQFHNAPLFLEDPSQMPPKEGAPAPGYPNYQEYH |
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 .19 RPM | 20 .42 RPM |
| SRP012922_cerebellum | 0 .41 RPM | 10 .17 RPM |
| SRP012922_heart | 0 .46 RPM | 24 .60 RPM |
| SRP012922_kidney | 0 .00 RPM | 50 .10 RPM |
| SRP012922_liver | 0 .00 RPM | 20 .74 RPM |
| SRP012922_lung | 0 .00 RPM | 19 .85 RPM |
| SRP012922_quadricep_muscle | 0 .52 RPM | 37 .39 RPM |
| SRP012922_spleen | 0 .11 RPM | 21 .29 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_2282 was not experimentally validated.