RetrogeneDB ID: | retro_mmus_1520 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 16:54818678..54819059(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | Gm4181 | ||
| Ensembl ID: | ENSMUSG00000091296 | ||
| Aliases: | None | ||
| Description: | predicted gene 4181 [Source:MGI Symbol;Acc:MGI:3782357] |
Retrocopy-Parental alignment summary:
>retro_mmus_1520
AGGATCAACTTTGAGACATTCATGCTTGAGATCCAACAGGACCAGGTGATGACTGACCTGAAGAGAATGCCCCAGGACAT
CAGTGAGGCCTTGTACAAATGCAAGGAGTTGACTAAAGAAAATCAATTATACTGCTTCAGGAACTGCCACCTCCTGATTG
AATGTAACCACATCAAGCAAAAAGTCAGGATCTCGAAGAAAGAGAACAGACAGCTGTTTGGGGAGCAAACAGCATTGAAA
GAATGCAACATAGAAACAAAAATACTATATAAAGAAGGCAGCCAGAAGATCAAAGTCAAATATAGCAAGCAAGGAGCAGG
AAAACAAATAACTGTGGTACCTGGAAGTAAGGAGGAGGCTGCTGTGTCAAATCCATGTGCC
AGGATCAACTTTGAGACATTCATGCTTGAGATCCAACAGGACCAGGTGATGACTGACCTGAAGAGAATGCCCCAGGACAT
CAGTGAGGCCTTGTACAAATGCAAGGAGTTGACTAAAGAAAATCAATTATACTGCTTCAGGAACTGCCACCTCCTGATTG
AATGTAACCACATCAAGCAAAAAGTCAGGATCTCGAAGAAAGAGAACAGACAGCTGTTTGGGGAGCAAACAGCATTGAAA
GAATGCAACATAGAAACAAAAATACTATATAAAGAAGGCAGCCAGAAGATCAAAGTCAAATATAGCAAGCAAGGAGCAGG
AAAACAAATAACTGTGGTACCTGGAAGTAAGGAGGAGGCTGCTGTGTCAAATCCATGTGCC
ORF - retro_mmus_1520 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.74 % |
| Parental protein coverage: | 69.02 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RINFETFMLEMQHNQVMTDLKRMPQDISEALYKCQHLTKENELYCCRNCHLLIESNLIQHKVRMLWKENR |
| RINFETFMLE.Q..QVMTDLKRMPQDISEALYKC..LTKEN.LYC.RNCHLLIE.N.I..KVR...KENR | |
| Retrocopy | RINFETFMLEIQQDQVMTDLKRMPQDISEALYKCKELTKENQLYCFRNCHLLIECNHIKQKVRISKKENR |
| Parental | QLLRKQIALEECNIKTKILCKEGSQKIKDEYSRQAAGKQIIVVPGSKEEAAMSNPCA |
| QL...Q.AL.ECNI.TKIL.KEGSQKIK..YS.Q.AGKQI.VVPGSKEEAA.SNPCA | |
| Retrocopy | QLFGEQTALKECNIETKILYKEGSQKIKVKYSKQGAGKQITVVPGSKEEAAVSNPCA |
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 | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .05 RPM | 2 .10 RPM |
RNA Polymerase II actvity near the 5' end of retro_mmus_1520 was not detected
No EST(s) were mapped for retro_mmus_1520 retrocopy.
No TSS is located nearby retro_mmus_1520 retrocopy 5' end.
retro_mmus_1520 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1520 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 | ENSMUSG00000091296 | 1 retrocopy |
retro_mmus_1520 ,
|