RetrogeneDB ID: | retro_mmus_1080 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 13:18892868..18893097(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | Stard13 | ||
| Ensembl ID: | ENSMUSG00000016128 | ||
| Aliases: | Stard13, DLC2, GT650 | ||
| Description: | StAR-related lipid transfer (START) domain containing 13 [Source:MGI Symbol;Acc:MGI:2385331] |
Retrocopy-Parental alignment summary:
>retro_mmus_1080
TCTGCCAGAGCCTGAGATTTGCTGCGGAGGAATATCCACGGGCTGCAGCTGGCAGAAATTGAGGAGAAGGAAGCACGTGA
CTGTCTCCAAGCTGATGGGTCTCGGCGGTACACTCAGCTGTATGAGGATCTGCAATTTCCCAGCAACATTGAGGCTGTCA
AAAAAAGACCATGGTTTTCTTGAAAGGAACCTTGTAGAACCTCTTTGCAGACAACCAACAACCACCAAC
TCTGCCAGAGCCTGAGATTTGCTGCGGAGGAATATCCACGGGCTGCAGCTGGCAGAAATTGAGGAGAAGGAAGCACGTGA
CTGTCTCCAAGCTGATGGGTCTCGGCGGTACACTCAGCTGTATGAGGATCTGCAATTTCCCAGCAACATTGAGGCTGTCA
AAAAAAGACCATGGTTTTCTTGAAAGGAACCTTGTAGAACCTCTTTGCAGACAACCAACAACCACCAAC
ORF - retro_mmus_1080 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.23 % |
| Parental protein coverage: | 68.47 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SARAWDLLWRNVRERRLAEIEAKEACDWLRAAGFPQYAQLYEDSQFPINIAAVKK-DHDFLERDLVEPLC |
| SARA.DLL.RN.....LAEIE.KEA.D.L.A.G...Y.QLYED.QFP.NI.AVKK.DH.FLER.LVEPLC | |
| Retrocopy | SARA*DLLRRNIHGLQLAEIEEKEARDCLQADGSRRYTQLYEDLQFPSNIEAVKK>DHGFLERNLVEPLC |
| Parental | RRLNTLN |
| R...T.N | |
| Retrocopy | RQPTTTN |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 15 .40 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 19 .93 RPM |
| SRP007412_heart | 0 .00 RPM | 32 .03 RPM |
| SRP007412_kidney | 0 .00 RPM | 29 .97 RPM |
| SRP007412_liver | 0 .00 RPM | 22 .64 RPM |
| SRP007412_testis | 0 .00 RPM | 10 .25 RPM |
RNA Polymerase II actvity near the 5' end of retro_mmus_1080 was not detected
No EST(s) were mapped for retro_mmus_1080 retrocopy.
No TSS is located nearby retro_mmus_1080 retrocopy 5' end.
retro_mmus_1080 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1080 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000016128 | 1 retrocopy |
retro_mmus_1080 ,
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