RetrogeneDB ID: | retro_mmus_2382 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 4:101875346..101875998(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000081121 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Grb2 | ||
| Ensembl ID: | ENSMUSG00000059923 | ||
| Aliases: | Grb2, AA408164, Ash | ||
| Description: | growth factor receptor bound protein 2 [Source:MGI Symbol;Acc:MGI:95805] |
Retrocopy-Parental alignment summary:
>retro_mmus_2382
ATGGAAGCCATCGCCAAATATGACTTCAAAGCTACTGCTGACGATGAGCTGAGCTTCAAAAGGGGGGGACATCCTTAAGG
TTTTGAATGAAGAATGTGACCAGAACTGGTATAAGGCAGACCTCAATGGGAAAGATGGCTTCATCCCCAAGAATTACATA
GAAATGAAACCACATCCGTGTTTTTTTGGCAAAATCCCCAGAGCCAAGGCAGAAGAAATGCTCAGCAAATAGCGGCATGA
CGGGGCCTTCCTGATCCGAGAGAGCGAGAGCGCTCCTGGGGACTTCTCCCTGTCTGTCAAGTTTGGAAATGATGTGCAGG
ACTTCAGGGTGCTCCGTGATGGAGCCGGGAAGTATTTCCTGTCGGTGGTGAAGTTTAATTCTTTGAATGAGCTGGTAGAT
TACCACAGATCAACATCCGTGTCCAGGAACCAGCAGATATTCTTACGGGACATAGAACAGATGCCACAGCAGCCAACCTA
CGTCCAGGCGCTCTTCGACTTTGACCCCCAGGAGGACTGCGAGCTGGGCTTTCGCAGAGGAGACTTCATTCATGTCATGG
ATAACTCAGATCCCAATTGGTGGAAAGGGGCCTGCCACGGGCAGACCGGCATGTTTCCCCGCAATTATGTCACCCCAGTG
AACCGGAACGTC
ORF - retro_mmus_2382 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.33 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MEAIAKYDFKATADDELSFKRG-DILKVLNEECDQNWYKAELNGKDGFIPKNYIEMKPHPWFFGKIPRAK |
| MEAIAKYDFKATADDELSFKRG.DILKVLNEECDQNWYKA.LNGKDGFIPKNYIEMKPHP.FFGKIPRAK | |
| Retrocopy | MEAIAKYDFKATADDELSFKRG>DILKVLNEECDQNWYKADLNGKDGFIPKNYIEMKPHPCFFGKIPRAK |
| Parental | AEEMLSKQRHDGAFLIRESESAPGDFSLSVKFGNDVQHFKVLRDGAGKYFLWVVKFNSLNELVDYHRSTS |
| AEEMLSK.RHDGAFLIRESESAPGDFSLSVKFGNDVQ.F.VLRDGAGKYFL.VVKFNSLNELVDYHRSTS | |
| Retrocopy | AEEMLSK*RHDGAFLIRESESAPGDFSLSVKFGNDVQDFRVLRDGAGKYFLSVVKFNSLNELVDYHRSTS |
| Parental | VSRNQQIFLRDIEQMPQQPTYVQALFDFDPQEDGELGFRRGDFIHVMDNSDPNWWKGACHGQTGMFPRNY |
| VSRNQQIFLRDIEQMPQQPTYVQALFDFDPQED.ELGFRRGDFIHVMDNSDPNWWKGACHGQTGMFPRNY | |
| Retrocopy | VSRNQQIFLRDIEQMPQQPTYVQALFDFDPQEDCELGFRRGDFIHVMDNSDPNWWKGACHGQTGMFPRNY |
| Parental | VTPVNRNV |
| VTPVNRNV | |
| Retrocopy | VTPVNRNV |
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 .21 RPM | 98 .40 RPM |
| SRP007412_cerebellum | 0 .13 RPM | 106 .38 RPM |
| SRP007412_heart | 0 .06 RPM | 62 .26 RPM |
| SRP007412_kidney | 0 .02 RPM | 46 .41 RPM |
| SRP007412_liver | 0 .03 RPM | 38 .18 RPM |
| SRP007412_testis | 0 .00 RPM | 7 .87 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2382 was not detected
No EST(s) were mapped for retro_mmus_2382 retrocopy.
No TSS is located nearby retro_mmus_2382 retrocopy 5' end.
retro_mmus_2382 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2382 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 | ENSMUSG00000032475 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000059923 | 2 retrocopies |
retro_mmus_2018, retro_mmus_2382 ,
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