RetrogeneDB ID: | retro_mmus_733 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 11:85216622..85217054(+) | ||
| Located in intron of: | ENSMUSG00000018481 | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000080791 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Akirin1 | ||
| Ensembl ID: | ENSMUSG00000023075 | ||
| Aliases: | None | ||
| Description: | akirin 1 [Source:MGI Symbol;Acc:MGI:1915300] |
Retrocopy-Parental alignment summary:
>retro_mmus_733
CCCGGTTCCCCGAATCGGCAACGCTGCGCCCCTCTGCCCGGCCCCACTCCGGGCCTCAGGCCCCCCGGACGCCGAGCCGC
CACCACTTCAGATGCAGACGCCACCGGCGAGCCTCCAGCAGCCTGCCCCGCCCGGCAGCGAGAGTTGTCTTCCAACTCCC
GAGCAAATTTTTCAGAACATAAAACAAGAATATAATCGTTACCAGAGATGGAGACATTTAGAAGTTGTTCTCAGTCAAAG
CGAAGCCTATACTTCAGAAAGTCAGCCTTCCTCCTCGGCACTCACTGCACCAGGTTCTCCAGGTGCTTTCTGGATGAAGA
AGGGCCAGCCCACCTTTACCCTTCGACAAGTGGGGTTAATGTGTGAGCGTCTCTTAAAATACTATGAGATAAAGTCCGAG
AGGAGTATGAGCAGACCCTCAGTACCAAACTC
ORF - retro_mmus_733 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.1 % |
| Parental protein coverage: | 75.39 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | PGSPKRRRCAPLPGPTPGLRPP-DAEPPPLQMQTPPASLQQPAPPGSERRLPTPEQIFQNIKQEYNRYQR |
| PGSP.R.RCAPLPGPTPGLRPP.DAEPPPLQMQTPPASLQQPAPPGSE..LPTPEQIFQNIKQEYNRYQR | |
| Retrocopy | PGSPNRQRCAPLPGPTPGLRPP>DAEPPPLQMQTPPASLQQPAPPGSESCLPTPEQIFQNIKQEYNRYQR |
| Parental | WRHLEVVLSQSEACTSETQPSSSALTAPGSPGAFWMKKDQPTFTLRQVGIICERLLKDYE-DKVREEYEQ |
| WRHLEVVLSQSEA.TSE.QPSSSALTAPGSPGAFWMKK.QPTFTLRQVG..CERLLK.YE.DKVREEYEQ | |
| Retrocopy | WRHLEVVLSQSEAYTSESQPSSSALTAPGSPGAFWMKKGQPTFTLRQVGLMCERLLKYYE<DKVREEYEQ |
| Parental | ILSTKL |
| .LSTKL | |
| Retrocopy | TLSTKL |
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 .07 RPM | 33 .95 RPM |
| SRP007412_cerebellum | 0 .09 RPM | 22 .36 RPM |
| SRP007412_heart | 0 .06 RPM | 11 .95 RPM |
| SRP007412_kidney | 0 .02 RPM | 15 .98 RPM |
| SRP007412_liver | 0 .03 RPM | 13 .74 RPM |
| SRP007412_testis | 0 .09 RPM | 39 .98 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_733 was not detected
No EST(s) were mapped for retro_mmus_733 retrocopy.
No TSS is located nearby retro_mmus_733 retrocopy 5' end.
retro_mmus_733 was not experimentally validated.