RetrogeneDB ID: | retro_dnov_2676 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_9735:258..608(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TMEM126A | ||
| Ensembl ID: | ENSDNOG00000004391 | ||
| Aliases: | None | ||
| Description: | transmembrane protein 126A [Source:HGNC Symbol;Acc:25382] |
Retrocopy-Parental alignment summary:
>retro_dnov_2676
GCTCTCTGTAGACTAAGAGCAAACAGTCTTTCTCAAAGTGTCTTAAAGGTCCTTGCTCTACAGCTGATCCCATTTTTGAC
AGCACGTGTATCTTACGCAGATTTTGTAAGTTTACCTTTGAGTCCAGGTACTTTGAATTGTGAGACCTGTACTGTAACAC
GGGGTGGCTTGATTGGTCTTGTTTTTGGCTGTCTGTATCCCTTTTCTTGGCTATTCCTGTGAATGGTGTCCTAGCAGCCA
GATATGTCTCTGTCATGCTACCAGAGAAAGGAAACATCTTAATTTACTGGATTAGAATCTCTAAGACTGTCTTTAGAAAG
ATGTTATTTCCTATTTTGCTCCAGACTGTT
ORF - retro_dnov_2676 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.49 % |
| Parental protein coverage: | 59.09 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SLFRRVLNVTQARIAAGLPMAVIPFLTAHASYKGFVSLPLTTGDLNCETCTVTRGGLVGLVFGGLYP-VF |
| .L.R...N.........L....IPFLTA..SY..FVSLPL..G.LNCETCTVTRGGL.GLVFG.LYP..F | |
| Retrocopy | ALCRLRANSLSQSVLKVLALQLIPFLTARVSYADFVSLPLSPGTLNCETCTVTRGGLIGLVFGCLYP<LF |
| Parental | LAIPVNGGLAARYISAVLPERGNILTYWIRISKPVFRKMLFPILLQTV |
| LAIPVNG.LAARY.S..LPE.GNIL.YWIRISK.VFRKMLFPILLQTV | |
| Retrocopy | LAIPVNGVLAARYVSVMLPEKGNILIYWIRISKTVFRKMLFPILLQTV |
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 .03 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 11 .96 RPM |
| SRP012922_heart | 0 .00 RPM | 23 .67 RPM |
| SRP012922_kidney | 0 .00 RPM | 20 .26 RPM |
| SRP012922_liver | 0 .00 RPM | 12 .23 RPM |
| SRP012922_lung | 0 .00 RPM | 11 .76 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 44 .48 RPM |
| SRP012922_spleen | 0 .00 RPM | 17 .17 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_2676 was not experimentally validated.