RetrogeneDB ID: | retro_mmus_3115 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 8:21460957..21462108(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000081321 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Zmym5 | ||
| Ensembl ID: | ENSMUSG00000040123 | ||
| Aliases: | Zmym5, 9830124H08Rik | ||
| Description: | zinc finger, MYM-type 5 [Source:MGI Symbol;Acc:MGI:3041170] |
Retrocopy-Parental alignment summary:
>retro_mmus_3115
ATGGAAGCTCATCTCACAGATATGGAATCATGTGGGGGTCCAACTAGTTCTTTAGCCGGTTAATCTAGAAACACACATGT
GGAAGATGATAATGTTGTATTTATTGAATCAGTACATCCTCCAATATGTGCTCCAGCAATACCTAATAAAAGAACTTTGT
ATTTGCTTCCTCAAAATACGAAAATCCACGAGGAACTGATTCCACGATTTCCCCTTCTTGGAGAGATTTGACTTCTCAGA
AGGGAGATACATGTGAAACAATTGTAATTGATGATGAAGGGGACACAGACACAAATAGAGGGGAGGAGAAAAATCCTACC
GACTTTATTGAATGAGGACTGAATGGAAATAAAAATAGTACCAAAAATGTGGATTTCCCCATTGCCAGTCTATCAAGAAG
CAAGACCAAGGCTGCAGTAGGACCTTGTAATCCCGGTAGGATTGATGTCACAGATGCATTTCAGAATGGAAGATTTGCAG
TTCATCACAATCCTGATTCTTATATCTCCCAGTCACCATCATTTCCTCATAACCAGAAACAACAAAAGGTGGATTCTTTA
TCACCAGTGGCCTAACTTCCTAAACAGAATTTCCAGCCGTCAAACCAACAACATCTTACTAAACCTGCTAATAAAATTAC
TTGTGCAAACTGAAAAAATCCTTTACAGAAGGGGCAGACAGCTTATCAATGAACAGGATCAGCTCATCTCTTTTGTTAAA
CCACCTGCCTTTCTTCTTTCTCCCAGAAGTGGACTCAAAGGACACAGAATGTAATGTGTAAAAAAGATTCTCCTGTGAGA
ACCACAACTATTGTTCCTCCAGTGGAGCCAAGCAAGTCCTTACAAGGATTTTATAATGCATCGCCATCTCCCTATGAAAA
CTGCCAGAGTCTTAGGAAAGAAGTTTTTACTAAATCCAGATGTATAATCTGTAATTAATTAGGAGAGGTTCGCCATGAAA
TCAGTGTTAACAGTATAACACATAAACGGTGCAGTAATAATTGCTTTAATGAATACAGATTGATGAATGGTCTAATAATG
AACTGCTGTGAACTGTGTAGCAAGTATATGCCCAAGAGTACTGGGCACAGCATTCTGATAACAGGTCAGCAAAAGACATT
CTGCTGCCAGAATTGTGCTGATGAATATAAA
ORF - retro_mmus_3115 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 88.31 % |
| Parental protein coverage: | 60.93 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MEAHLADMESSGGPTSSLAGTSRNTHVEDDDVVFIESVQPPICAPAIPNER-NFVFASSKHENPPGTDST |
| MEAHL.DMES.GGPTSSLAG.SRNTHVEDD.VVFIESV.PPICAPAIPN.R.NFVFASSK.ENP.GTDST | |
| Retrocopy | MEAHLTDMESCGGPTSSLAG*SRNTHVEDDNVVFIESVHPPICAPAIPNKR<NFVFASSKYENPRGTDST |
| Parental | ISPSWRDLTSQKGNLCETIVIDDEGDTDTNGGEEKNPTDFIEWGPNGNKSSTKNVDFPIASLSRSKTKTA |
| ISPSWRDLTSQKG..CETIVIDDEGDTDTN.GEEKNPTDFIE.G.NGNK.STKNVDFPIASLSRSKTK.A | |
| Retrocopy | ISPSWRDLTSQKGDTCETIVIDDEGDTDTNRGEEKNPTDFIE*GLNGNKNSTKNVDFPIASLSRSKTKAA |
| Parental | VGPFNPGRIDVTDAFQNGRFAVHHNPDSWISQSASFPRNQKQQGVDSLSPVASLPKQIFQPSNQQP-TKP |
| VGP.NPGRIDVTDAFQNGRFAVHHNPDS.ISQS.SFP.NQKQQ.VDSLSPVA.LPKQ.FQPSNQQ..TKP | |
| Retrocopy | VGPCNPGRIDVTDAFQNGRFAVHHNPDSYISQSPSFPHNQKQQKVDSLSPVA*LPKQNFQPSNQQHLTKP |
| Parental | V-KVTCANCKKPLQKGQTAYQRKGSAHLFCSTTCLSSFSHKRTRKTRNVMCKKDSPVRTTTIVPPVESSK |
| ..K.TCAN.K.PLQKGQTAYQ..GSAHLFC.TTCLSSFS.K.T..T.NVMCKKDSPVRTTTIVPPVE.SK | |
| Retrocopy | ANKITCAN*KNPLQKGQTAYQ*TGSAHLFC*TTCLSSFSQKWTQRTQNVMCKKDSPVRTTTIVPPVEPSK |
| Parental | SLQGFYNASLSPYENCQSLRKEVFTKSRCIICNKLGEVRHEISVNSITHKLCSNNCFNEYRLTNGLIMNC |
| SLQGFYNAS.SPYENCQSLRKEVFTKSRCIICN.LGEVRHEISVNSITHK.CSNNCFNEYRL.NGLIMNC | |
| Retrocopy | SLQGFYNASPSPYENCQSLRKEVFTKSRCIICN*LGEVRHEISVNSITHKRCSNNCFNEYRLMNGLIMNC |
| Parental | CEQCSKYMPKSTGHSILITGQQKRFCCQNCADEYK |
| CE.CSKYMPKSTGHSILITGQQK.FCCQNCADEYK | |
| Retrocopy | CELCSKYMPKSTGHSILITGQQKTFCCQNCADEYK |
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 | 33 .39 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 35 .26 RPM |
| SRP007412_heart | 0 .00 RPM | 30 .82 RPM |
| SRP007412_kidney | 0 .00 RPM | 46 .10 RPM |
| SRP007412_liver | 0 .00 RPM | 32 .36 RPM |
| SRP007412_testis | 0 .00 RPM | 31 .93 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3115 was not detected
No EST(s) were mapped for retro_mmus_3115 retrocopy.
No TSS is located nearby retro_mmus_3115 retrocopy 5' end.
retro_mmus_3115 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3115 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000040123 | 4 retrocopies |