RetrogeneDB ID: | retro_dnov_65 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_1200:119444..119995(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000003661 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_65
ATGGCGGTAGCCAGGGCTGGGGTCCTGGGAGCCTGATGGCTGCAGAGGGCAGCCCAGGACTTGGTTCCGCTGGCTGCCTG
GACAGTTCCCACATTACCAAGGACCTGCTCCCCAGACCCTACCCCAAGACCCCAGAAGAATGGGCCGGCACTGCCAAGGA
GTATAATATGTGAGTCAAAGACTATGAGCTGTGCCCAGATGATGGCATGGGGTCTGGTGACTGCGCGAAGCTCCCTGACC
GCCCACAGCAGGAGAGGGGTCCGTCGTATGACTGGGCCCACCCAGACCTGAGGGTGAACTGCAGTGAACCGCTACCTGGG
GCTCAGACATGGATACCTCTAGCCGTGGGGACACCATCCCCCAGCCGTTTCTTTGAAACTCACTGTAAGCAGCTCTTCGA
CTTTGTGGCCTTCATGGGGTTCATGTTTTAGATGGGGGAGATTTACTCCACCTACAGCCAGTGAGGCCAGAGCAGTGTCC
TAATAAACCTGCACCTGCAACGAGGTGGCAATCCCACCAAAGAGCCCGGACCTCTGGTCCACTGTGAGATC
ORF - retro_dnov_65 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.11 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | MAAARAGILGVRWLQRAACGVVPLGART-ASHITKDMLPGPYPKTPEERAAAAKKYNMRVEDYEPYPDNG |
| MA.ARAG.LG..WLQRAA...VPL.A.T..SHITKD.LP.PYPKTPEE.A..AK.YNM.V.DYE..PD.G | |
| Retrocopy | MAVARAGVLGA*WLQRAAQDLVPLAAWT<SSHITKDLLPRPYPKTPEEWAGTAKEYNM*VKDYELCPDDG |
| Parental | MGYGDYPKLPDRSQQERDPWYDWDHSDLRLNWGEPLH-WDLDMYIRNRVDT-SPTSVS-WNVMCKQLFGF |
| MG.GD..KLPDR.QQER.P.YDW.H.DLR.N..EPL..W..DM....R.DT..P..VS.....CKQLF.F | |
| Retrocopy | MGSGDCAKLPDRPQQERGPSYDWAHPDLRVNCSEPLP<WGSDMDTSSRGDT<HPPAVS<FETHCKQLFDF |
| Parental | VAFMVFMFWLGEIYPTYQPVGPKQYPYNNLYLERGGDPTKEPEPVVHYEI |
| VAFM.FMF..GEIY.TY...G......N.L.L.RGG.PTKEP.P.VH.EI | |
| Retrocopy | VAFMGFMF*MGEIYSTYSQ*GQSSVLIN-LHLQRGGNPTKEPGPLVHCEI |
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 | 90 .43 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 55 .54 RPM |
| SRP012922_heart | 0 .00 RPM | 93 .04 RPM |
| SRP012922_kidney | 0 .00 RPM | 97 .74 RPM |
| SRP012922_liver | 0 .00 RPM | 46 .44 RPM |
| SRP012922_lung | 0 .00 RPM | 41 .24 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 81 .87 RPM |
| SRP012922_spleen | 0 .00 RPM | 40 .75 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_65 was not experimentally validated.