RetrogeneDB ID: | retro_mmus_1870 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 19:33668268..33668463(-) | ||
| Located in intron of: | ENSMUSG00000024766 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Mrpl33 | ||
| Ensembl ID: | ENSMUSG00000029142 | ||
| Aliases: | Mrpl33, 0610009M10Rik, L33mt, MRP-L33 | ||
| Description: | mitochondrial ribosomal protein L33 [Source:MGI Symbol;Acc:MGI:2137225] |
Retrocopy-Parental alignment summary:
>retro_mmus_1870
ATGGTGCCTTCTGCTGTCTCATTTGCAAAGAGCAAGTCAAAATCTATTCTGGTCAAACTGGTGTGCCAAACCAAGACAGG
TTTCTCCTTCATCCACAAAAGAAGCCAACTTTGAGAGAAGCTGACCCTTCTGCACTATGATCCAATGGTGAACAAAAAAC
TTATCCTTGTGGAACAGAAAAAAATATATGCCCTC
ORF - retro_mmus_1870 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.38 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MLLSAVSFAKSKSKTILVKLVSQAGTGFSFNHKRSRLREKLSLLHYDPIVNKKVLFVEQKKIRSL |
| M..SAVSFAKSKSK.ILVKLV.Q..TGFSF.HKRS.L.EKL.LLHYDP.VNKK...VEQKKI..L | |
| Retrocopy | MVPSAVSFAKSKSKSILVKLVCQTKTGFSFIHKRSQL*EKLTLLHYDPMVNKKLILVEQKKIYAL |
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 | 16 .03 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 12 .11 RPM |
| SRP007412_heart | 0 .00 RPM | 34 .59 RPM |
| SRP007412_kidney | 0 .00 RPM | 28 .87 RPM |
| SRP007412_liver | 0 .00 RPM | 17 .37 RPM |
| SRP007412_testis | 0 .00 RPM | 17 .47 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_1870 was not detected
No EST(s) were mapped for retro_mmus_1870 retrocopy.
No TSS is located nearby retro_mmus_1870 retrocopy 5' end.
retro_mmus_1870 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1870 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000015881 | 1 retrocopy | |
| Echinops telfairi | ENSETEG00000003239 | 2 retrocopies | |
| Mus musculus | ENSMUSG00000029142 | 2 retrocopies |
retro_mmus_1869, retro_mmus_1870 ,
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