RetrogeneDB ID: | retro_mmus_3113 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 8:21100650..21101801(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000085173 | |
| 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_3113
ATGGAAGCTCATCTCACAGATATGGAATCATGTGGGGGTCCAACTAGTTCTTTAGCCGGTTAATCTAGAAACACACATGT
GGAAGATGATAATGTTGTATTTATTGAATCAGTACATCCTCCAATATGTGCTCCAGCAATACCTAATAAAAGAAACTTTG
TATTTGCTTCGTCAAAATATGAAAATCCACGAGGAACTGATTCCACGATTTCCCCTTCTTGGAGAGATTTGACTTCTCAG
AAGGGAGATATATGTGAAACAATTGTAATTGATGATGAAGGGGACACAGCACAAATAGAGGGGAGGAGAAAAATCCTACC
GACTTTATTGAATGGGGACTGAATGGAAATAAAAATAGTACCAAAAATGTGGATTTCCCCATTGCCAGTCTACCAAGAAA
CAAGACCAAGGCTGCAGTAGGACCTTTTAATCCCGGTAGGATTGATGTCACAGATGCATTTCAGAATGGAAGATTTGCAG
TTCATCACAATCCTGATTCTTATATCTCCCAGTCACCATCATTTCCTCATAACCTGAAACAACAAAAGGTGGATTCTTTA
TCACCAGTGGCCTCACTTCCTAAACAGAATTTCCAGCCGTCAAACCAACAACATCTTACTAAACCTGCTAATAAAATTAC
TTGTGCAAACTGCAAAAATCCTTTACAGAAGGGGCAGACAGCTTATCAATGAAAAGGATCAGCTCACCTCTTTTGTTCAA
CCACCTGCCTTTCTTCTTTCTCCCAGAAATGGACTCAAAGGACACAGAATGTAATGTGTAAAAAAGATTCTCCTGTGAGA
ACCACAACTATTGTTCCTCCAGTGGAGCCAAGCAAGTCCTTACAAGGATTTTATAATGCATCGCCATCTCCCTATGAAAA
CTGCCAGAGTCTTAGGAAAGAAGTTTTTACTAAGTCCAGATGTATAATCTGTAATAAATTAGGAGAGGTTCGCCATGAAA
TCAGTGTTAACAGTATAACACATAAACTGTGCAGTAATAATTGCTTTAATGAATACAGATTGACGAATGGTCTAATAATG
AACTGCTGTGAACAATGTAGCAAGTATATGCCCAAGAGTACTGGGCACAGCATTCTGATAACAGGTCAGCAAAAGAGATT
CTGCTGCCAGAATTGTGCTGATGAATATAAA
ORF - retro_mmus_3113 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.13 % |
| Parental protein coverage: | 60.93 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MEAHLADMESSGGPTSSLAGTSRNTHVEDDDVVFIESVQPPICAPAIPNERNFVFASSKHENPPGTDSTI |
| MEAHL.DMES.GGPTSSLAG.SRNTHVEDD.VVFIESV.PPICAPAIPN.RNFVFASSK.ENP.GTDSTI | |
| Retrocopy | MEAHLTDMESCGGPTSSLAG*SRNTHVEDDNVVFIESVHPPICAPAIPNKRNFVFASSKYENPRGTDSTI |
| Parental | SPSWRDLTSQKGNLCETIVIDDEGDT-DTNGGEEKNPTDFIEWGPNGNKSSTKNVDFPIASLSRSKTKTA |
| SPSWRDLTSQKG..CETIVIDDEGDT..TN.GEEKNPTDFIEWG.NGNK.STKNVDFPIASL.R.KTK.A | |
| Retrocopy | SPSWRDLTSQKGDICETIVIDDEGDT<STNRGEEKNPTDFIEWGLNGNKNSTKNVDFPIASLPRNKTKAA |
| Parental | VGPFNPGRIDVTDAFQNGRFAVHHNPDSWISQSASFPRNQKQQGVDSLSPVASLPKQIFQPSNQQP-TKP |
| VGPFNPGRIDVTDAFQNGRFAVHHNPDS.ISQS.SFP.N.KQQ.VDSLSPVASLPKQ.FQPSNQQ..TKP | |
| Retrocopy | VGPFNPGRIDVTDAFQNGRFAVHHNPDSYISQSPSFPHNLKQQKVDSLSPVASLPKQNFQPSNQQHLTKP |
| Parental | V-KVTCANCKKPLQKGQTAYQRKGSAHLFCSTTCLSSFSHKRTRKTRNVMCKKDSPVRTTTIVPPVESSK |
| ..K.TCANCK.PLQKGQTAYQ.KGSAHLFCSTTCLSSFS.K.T..T.NVMCKKDSPVRTTTIVPPVE.SK | |
| Retrocopy | ANKITCANCKNPLQKGQTAYQ*KGSAHLFCSTTCLSSFSQKWTQRTQNVMCKKDSPVRTTTIVPPVEPSK |
| Parental | SLQGFYNASLSPYENCQSLRKEVFTKSRCIICNKLGEVRHEISVNSITHKLCSNNCFNEYRLTNGLIMNC |
| SLQGFYNAS.SPYENCQSLRKEVFTKSRCIICNKLGEVRHEISVNSITHKLCSNNCFNEYRLTNGLIMNC | |
| Retrocopy | SLQGFYNASPSPYENCQSLRKEVFTKSRCIICNKLGEVRHEISVNSITHKLCSNNCFNEYRLTNGLIMNC |
| Parental | CEQCSKYMPKSTGHSILITGQQKRFCCQNCADEYK |
| CEQCSKYMPKSTGHSILITGQQKRFCCQNCADEYK | |
| Retrocopy | CEQCSKYMPKSTGHSILITGQQKRFCCQNCADEYK |
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 .05 RPM | 31 .93 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3113 was not detected
No EST(s) were mapped for retro_mmus_3113 retrocopy.
No TSS is located nearby retro_mmus_3113 retrocopy 5' end.
retro_mmus_3113 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3113 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 |