RetrogeneDB ID: | retro_mmus_1414 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 15:83405577..83406093(-) | ||
| Located in intron of: | ENSMUSG00000016664 | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000049414 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Vkorc1l1 | ||
| Ensembl ID: | ENSMUSG00000066735 | ||
| Aliases: | None | ||
| Description: | vitamin K epoxide reductase complex, subunit 1-like 1 [Source:MGI Symbol;Acc:MGI:1916818] |
Retrocopy-Parental alignment summary:
>retro_mmus_1414
GTCCTGCTGAGAGTGTCGGTGCCGCGTTGGGAACGGGTGGCCCGGTATGCAGTGTGCGCCGCCGGGATCCTGCTCTCCAT
CTACGCCTACCACGTGGAGCGGGAGAAGGAGAGGGACCCGGAGCACCGGGCCCTCTGCGACCTGGGGCCCTGGGTGAAGT
GCTCCGCCGCCCTGGCCTCCAGATGGGGTCGAGGATTTGGTCTTTTGGGTTCCATTTTTGGAAAAGATGGTGTATTAAAC
CAGCCAAACAGTGTCTTTGGACTTATATTTTATATACTACAGTTATTACTTGGCATGACAGCCAGCGCAGTTGCAGCTCT
GGTCCTCATGACCTCCTCCATTGTGTCTGTGGTGGGCTCTTTGTACCTGGCCTACATTCTGTACTTTGTGCTGAAAGAGT
TTTGCATCATCTGCGTCACCACATATGTGCTGAACTTCCTCCTCCTCATCATCAACTACAAACGACTAGTTTATTTGAAT
GAGGCCTGGAAGCGACAGCTGCAGCCTAAGGAAGAC
ORF - retro_mmus_1414 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 100.0 % |
| Parental protein coverage: | 97.73 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VLLRVSVPRWERVARYAVCAAGILLSIYAYHVEREKERDPEHRALCDLGPWVKCSAALASRWGRGFGLLG |
| VLLRVSVPRWERVARYAVCAAGILLSIYAYHVEREKERDPEHRALCDLGPWVKCSAALASRWGRGFGLLG | |
| Retrocopy | VLLRVSVPRWERVARYAVCAAGILLSIYAYHVEREKERDPEHRALCDLGPWVKCSAALASRWGRGFGLLG |
| Parental | SIFGKDGVLNQPNSVFGLIFYILQLLLGMTASAVAALVLMTSSIVSVVGSLYLAYILYFVLKEFCIICVT |
| SIFGKDGVLNQPNSVFGLIFYILQLLLGMTASAVAALVLMTSSIVSVVGSLYLAYILYFVLKEFCIICVT | |
| Retrocopy | SIFGKDGVLNQPNSVFGLIFYILQLLLGMTASAVAALVLMTSSIVSVVGSLYLAYILYFVLKEFCIICVT |
| Parental | TYVLNFLLLIINYKRLVYLNEAWKRQLQPKED |
| TYVLNFLLLIINYKRLVYLNEAWKRQLQPKED | |
| Retrocopy | TYVLNFLLLIINYKRLVYLNEAWKRQLQPKED |
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 .02 RPM | 36 .28 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 24 .71 RPM |
| SRP007412_heart | 0 .00 RPM | 10 .43 RPM |
| SRP007412_kidney | 0 .04 RPM | 16 .67 RPM |
| SRP007412_liver | 0 .08 RPM | 22 .31 RPM |
| SRP007412_testis | 0 .05 RPM | 14 .32 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_1414 was not detected
No EST(s) were mapped for retro_mmus_1414 retrocopy.
No TSS is located nearby retro_mmus_1414 retrocopy 5' end.
retro_mmus_1414 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1414 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000066735 | 2 retrocopies |
retro_mmus_1414 , retro_mmus_2901,
|
| Rattus norvegicus | ENSRNOG00000018291 | 1 retrocopy |