RetrogeneDB ID: | retro_dnov_1980 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_40201:1204..1542(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000007278 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_1980
GTGGTGTTGGAAACTTTTTTCTTATTTGTAGTTGAATTGTCTACTTTTACTGCTATACCTTGTCTGTGTTTGTTAGGACC
AAACATCAAAGCATGGCTAAGAGTTTTCAATAGGAAAGGGGTTATATCCATTTGGGAGAAGAGTCTTCAGATCAGTACAG
TTTCTAATTTTGTAGGAATATGGCTTGGAACACTTCTTGTTACACTGGATTAGGAAAGACCATGCATATGTGGCCCATCT
CTTGTACGCTTGGAGCGACTTTTGGCTGCGTGAATGGCCTTGTTATTTCATCACTCTGGATATACTGGAATAGAAAGATA
CTTACATGCAAGAACAAT
GTGGTGTTGGAAACTTTTTTCTTATTTGTAGTTGAATTGTCTACTTTTACTGCTATACCTTGTCTGTGTTTGTTAGGACC
AAACATCAAAGCATGGCTAAGAGTTTTCAATAGGAAAGGGGTTATATCCATTTGGGAGAAGAGTCTTCAGATCAGTACAG
TTTCTAATTTTGTAGGAATATGGCTTGGAACACTTCTTGTTACACTGGATTAGGAAAGACCATGCATATGTGGCCCATCT
CTTGTACGCTTGGAGCGACTTTTGGCTGCGTGAATGGCCTTGTTATTTCATCACTCTGGATATACTGGAATAGAAAGATA
CTTACATGCAAGAACAAT
ORF - retro_dnov_1980 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.56 % |
| Parental protein coverage: | 100. % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LVLETF-LFAVILSTFTTIPCLCLLGPNTKAWLRVFSRNGVTSIWENSLQITTISSFVGTWLGALPIPLD |
| .VLETF.LF.V.LSTFT.IPCLCLLGPN.KAWLRVF.R.GV.SIWE.SLQI.T.S.FVG.WLG.L...LD | |
| Retrocopy | VVLETFFLFVVELSTFTAIPCLCLLGPNIKAWLRVFNRKGVISIWEKSLQISTVSNFVGIWLGTLLVTLD |
| Parental | WERP-WQVWPISCTLGATFGYVAGLIISPLWIYWNRKQLTYKNN |
| .ERP....WPISCTLGATFG.V.GL.IS.LWIYWNRK.LT.KNN | |
| Retrocopy | *ERP<MHMWPISCTLGATFGCVNGLVISSLWIYWNRKILTCKNN |
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 | 6 .42 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 2 .06 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .80 RPM |
| SRP012922_kidney | 0 .00 RPM | 4 .11 RPM |
| SRP012922_liver | 0 .00 RPM | 1 .70 RPM |
| SRP012922_lung | 0 .00 RPM | 4 .89 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 11 .08 RPM |
| SRP012922_spleen | 0 .00 RPM | 4 .46 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_1980 was not experimentally validated.