RetrogeneDB ID: | retro_dnov_141 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_2024:124099..124503(+) | ||
| Located in intron of: | ENSDNOG00000016885 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UBE2D3 | ||
| Ensembl ID: | ENSDNOG00000009320 | ||
| Aliases: | None | ||
| Description: | ubiquitin-conjugating enzyme E2D 3 [Source:HGNC Symbol;Acc:12476] |
Retrocopy-Parental alignment summary:
>retro_dnov_141
AGCGATTTGGCCCGGGGCCCCAGGACAAGGTGCACAGGTGCAGGTGGGGATGGAGGGTTTCACGGGAAGCCACGATCACC
GGACCTCAGGACGGCCCAGGGCAAGGCGGCGCGTTCTTCTTGACAATTCATTTTCCTACAGGCACCCCCTTCCAACCACC
TACGGTTGCATTTACAACAAGAATTTATCACCCAAATATTAACAATGGAAGCATTTGTTTCAATATTCTACAATCACCGT
GGTCTTCTGCTTTAACTATTTCTAAAATTATTTTTTCCATTTGTTCTCTGCTGTGTGTGCTGAGCCCAGATAACCCCCTA
GAGCCAGAGATTACCCAGATCTATAAAGTGGACAGAGATAAGTACAACAGAATATCTCTGGTATGGACTCACAACTATAC
CATG
ORF - retro_dnov_141 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.14 % |
| Parental protein coverage: | 98.56 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SDLARDPPAQCSAGPVGDDMFHW-QATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNIN |
| SDLAR.P...C..G..GD..FH...ATI.GP.D.P.QGG.FFLTIHFPT..PF.PP.VAFTTRIYHPNIN | |
| Retrocopy | SDLARGPRTRCT-GAGGDGGFHG<EATITGPQDGPGQGGAFFLTIHFPTGTPFQPPTVAFTTRIYHPNIN |
| Parental | SNGSICLDILRSQWSPALTISKVLLSICSLLCDPNPDDPXXXXXXXXXXXXXXXYNRISREWTQKYAM |
| .NGSIC..IL.S.WS.ALTISK...SICSLLC...PD.P...............YNRIS..WT..Y.M | |
| Retrocopy | -NGSICFNILQSPWSSALTISKIIFSICSLLCVLSPDNPLEPEITQIYKVDRDKYNRISLVWTHNYTM |
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 | 44 .92 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 32 .86 RPM |
| SRP012922_heart | 0 .00 RPM | 30 .16 RPM |
| SRP012922_kidney | 0 .00 RPM | 28 .75 RPM |
| SRP012922_liver | 0 .00 RPM | 33 .28 RPM |
| SRP012922_lung | 0 .00 RPM | 42 .15 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 52 .27 RPM |
| SRP012922_spleen | 0 .00 RPM | 60 .89 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_141 was not experimentally validated.