RetrogeneDB ID: | retro_dnov_106 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_1614:247706..248239(-) | ||
| Located in intron of: | ENSDNOG00000018889 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RCE1 | ||
| Ensembl ID: | ENSDNOG00000004274 | ||
| Aliases: | None | ||
| Description: | RCE1 homolog, prenyl protein protease (S. cerevisiae) [Source:HGNC Symbol;Acc:13721] |
Retrocopy-Parental alignment summary:
>retro_dnov_106
CCCCACTCGTAGGCCTGCTGCCTCACAGGTATTTGCTGGCTGCGGAACCAAGTGACTGTGCCCCTAACAGAGGAGCTGCT
GTTCTGGCCCTACGTGCTGCCCATGTTAGTGCCATGTGTGGGTATGGGCCCTGCTGTATTCACCTGCCCACTCTTCTTTG
GAGTTGCCCATTTTCACCACATTATTGAGCAGCTGTGGTTCTGCCAGAATAGTGTGGGGAGTATCTTCTTGTCTGCAGTG
TTCCAATTCTCCTACACAGCTGTCTTCGATGCTTACACTGCTTTCCTCTTCATCTGCACAGGACACCTGATTGGGCCCAT
TCACTGCCACTCTTTCTGCAATTACATGGGCTTCTTTGCTGTATGTGTGGCCCTGGAGTATCCACAGAGGCGGCCCTTGC
TGGCTGGCTATGCCTGGGTATGGGACTCTTCCTGCTTCTATTCCAGCCCCTCACAGACCCCAAGCTCTAGAGCAGCCTTC
CCCTTCATGTGCTTTTGGAGCGGGCAGGAGACTCAGAGGCTCCCCTGTGCTCC
ORF - retro_dnov_106 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.01 % |
| Parental protein coverage: | 54.43 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PRSWAHCLTDMRWLRNQVIAPLTEELVFRGCMLPMLAPCMGLGPAVFTCPLFFGVAHFHHIIEQLRFRQS |
| P.S.A.CLT...WLRNQV..PLTEEL.F....LPML.PC.G.GPAVFTCPLFFGVAHFHHIIEQL.F.Q. | |
| Retrocopy | PHS*ACCLTGICWLRNQVTVPLTEELLFWPYVLPMLVPCVGMGPAVFTCPLFFGVAHFHHIIEQLWFCQN |
| Parental | SVGSIFLSAAFQFSYTAVFGAYTAFLFIRTGHLIGPVLCHSFCNYMGFPAVCAALEHPQRWPLLAGYA-L |
| SVGSIFLSA.FQFSYTAVF.AYTAFLFI.TGHLIGP..CHSFCNYMGF.AVC.ALE.PQR.PLLAGYA.L | |
| Retrocopy | SVGSIFLSAVFQFSYTAVFDAYTAFLFICTGHLIGPIHCHSFCNYMGFFAVCVALEYPQRRPLLAGYA<L |
| Parental | GVGLFLLLLQPLTDPKLYGSLPLCVLLERAGDSEAPLCS |
| G.GLFLLL.QPLTDPKL..SLPL.VLLERAGDSEAPLCS | |
| Retrocopy | GMGLFLLLFQPLTDPKL*SSLPLHVLLERAGDSEAPLCS |
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 | 13 .03 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 18 .42 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .10 RPM |
| SRP012922_kidney | 0 .00 RPM | 11 .50 RPM |
| SRP012922_liver | 0 .00 RPM | 5 .73 RPM |
| SRP012922_lung | 0 .00 RPM | 18 .79 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 5 .19 RPM |
| SRP012922_spleen | 0 .00 RPM | 19 .80 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_106 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000004274 | 2 retrocopies |
retro_dnov_106 , retro_dnov_1957,
|
| Oryctolagus cuniculus | ENSOCUG00000009821 | 1 retrocopy |