RetrogeneDB ID: | retro_mmus_2671 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 5:99021805..99022222(-) | ||
| Located in intron of: | ENSMUSG00000029334 | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000089659 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Rbpms2 | ||
| Ensembl ID: | ENSMUSG00000032387 | ||
| Aliases: | Rbpms2, 2400008B06Rik, AI316523 | ||
| Description: | RNA binding protein with multiple splicing 2 [Source:MGI Symbol;Acc:MGI:1919223] |
Retrocopy-Parental alignment summary:
>retro_mmus_2671
ATCTTTGACAGCCGGGCAGGAGCGGAAGCAGCCAAAAACGCATTGAATGGTATTCGCTTTGATCCGGAGAACCCGCAGAC
CCTGAGGCTAGAGTTTGCCAAAGCCAACACCAAGATGGCCAAGAGCAAACTAATAGCGACACCAAATCCCACCAGTGTCC
ACCTTGCTCTAGGAGCACACTTGATCGCCCGGGACCCTTATGACCTGATGGGGACTGCTCTGATTCCTGCATCCCCAGAG
GCCTGGGCCCCTTACCCTCTCTACACCACAGAGCTGACCCCAGCCATTTCACATACCACGTTCACCTACCCAGCTGCCAC
TGCTGCTGCTGCTGCCGCCGCCACCCTACATGCTCAGGTGCGCTGGTACCCCTCCTCTGACACCACCCAGCAAGGATGGA
AGTACCGCCAGTTCTGT
ORF - retro_mmus_2671 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 99.28 % |
| Parental protein coverage: | 67.48 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | IFDSRAGAEAAKNALNGIRFDPENPQTLRLEFAKANTKMAKSKLIATPNPTSVHPALGAHLIARDPYDLM |
| IFDSRAGAEAAKNALNGIRFDPENPQTLRLEFAKANTKMAKSKLIATPNPTSVH.ALGAHLIARDPYDLM | |
| Retrocopy | IFDSRAGAEAAKNALNGIRFDPENPQTLRLEFAKANTKMAKSKLIATPNPTSVHLALGAHLIARDPYDLM |
| Parental | GTALIPASPEAWAPYPLYTTELTPAISHTTFTYPAATAAAAAAATLHAQVRWYPSSDTTQQGWKYRQFC |
| GTALIPASPEAWAPYPLYTTELTPAISHTTFTYPAATAAAAAAATLHAQVRWYPSSDTTQQGWKYRQFC | |
| Retrocopy | GTALIPASPEAWAPYPLYTTELTPAISHTTFTYPAATAAAAAAATLHAQVRWYPSSDTTQQGWKYRQFC |
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 | 1 .89 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 2 .91 RPM |
| SRP007412_heart | 0 .12 RPM | 29 .85 RPM |
| SRP007412_kidney | 0 .15 RPM | 61 .16 RPM |
| SRP007412_liver | 0 .03 RPM | 38 .97 RPM |
| SRP007412_testis | 0 .00 RPM | 3 .70 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2671 was not detected
No EST(s) were mapped for retro_mmus_2671 retrocopy.
No TSS is located nearby retro_mmus_2671 retrocopy 5' end.
retro_mmus_2671 was not experimentally validated.