RetrogeneDB ID: | retro_mmus_677 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 10:118324563..118326969(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000094544 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cdc5l | ||
| Ensembl ID: | ENSMUSG00000023932 | ||
| Aliases: | Cdc5l, 1200002I02Rik, AA408004, PCDC5RP | ||
| Description: | cell division cycle 5-like (S. pombe) [Source:MGI Symbol;Acc:MGI:1918952] |
Retrocopy-Parental alignment summary:
>retro_mmus_677
ATGCCCCGGATTATGATCAAAGGAGGAGTGTGGAGGAACACGGAGGATGAAATTCTGAAAGCAGCGGTAATGAAATATGG
GAAAAACCAGTGGTCTAGGATTGCCTCATTGCTGCATAGGAAATCGGCAAAGCAGTGCAAAGCCAGATGGTACGAATGGC
TGGATCCAAGTATTAAAAAAACTGAATGGTCCAGAGAAGAGGAAGAAAAACTCTTGCACCTGGCCAAGCTGATGCCAACG
CAGTGGAGGACCATTGCTCCAATCATAGGAAGAACAGCAGCCCAGTGCCTAGAACACTATGAATTCCTCCTGGACAGAAC
TGCTCAAAGGGACAATGAAGAGGAAACAACAGATGACCCCCGAAAGCTTAAGCCTGGAGAGATCGATCCAAACCCAGAGA
CCAAGCCAGCCCGGCCCGACCCGATTGACATGGATGAGGATGAACTTGAGATGCTCTCTGAGGCTCGAGCCCGTCTGGCC
AATACTCAAGGAAAGAAGGCTAAAAGGAAAGCAAGAGAAAAGCAGTTGGAAGAAGCCAGGCGCCTTGCTGCCCTCCAGAA
AAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAGGAAGAGAGGCGTTGATTATAATGCTGAAA
TCCCATTTGAAAAAAAGCCAGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGACTTCAGG
AAATTGCGACAGCAGGATCTTGACGGGGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGAAAAACAGACAAACAGCGTTT
AAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCCGAGTTGACTAAAAAGAGAAGCA
AACTTGTGTTGCCTGCGCCTCAGATTTCAGATGCTGAACTCCAGGAAGTTGTCAAGGTAGGCCAGGCCAGTGAAGTCGCG
CGGCAGACGGCGGAGGAGTCAGGAATAACAAACTCTGCTTCTAGCACTCTCCTGTCTGAGTACAATGTCACAAACAACAG
CATCGCTCTGAGAACACCACGGACACCAGCCCCTCAAGACAGGATTCTACAGGAAGCTCAGAACCTCATGGCCTTGACCA
ATGTGGACACTCCGTTGAAAGGTGGGCTTAATACCCCACTGCATGAGAGTGACTTCTCTGGTGTGACCCCACAGCGGCAA
GTTGTGCAGACTCCAAATACAGTTCTGTCTACCCCTCTCAGGACTCCTTCTAATGGAGCTGAAGGGCTGACTCCCCGAAG
TGGAACAACTCCTAAACCAGTCACTAATGCCACCCCAGGTAGAACACCACTTAGAGACAAGTTAAACATTAATCCAGAGG
ATGGAATGGCAGACTACAGTGACCCCTCTTACGTGAAGCAGATGGAAAGAGAATCTCGTGAACATCTCCGTCTCGGGTTC
TTAGGCCTCCCTGCACCTAAGAACGATTTTGAAATCGTTCTGCCTGAAAATGCCGAGAAGGAACTGGAAGAACGTGAAAT
AGATGATACCTACATTGAAGATGCTGCTGATGTGGATGCTCGAAAGCAGGCCATCCGAGATGCTGAGCGTGTAAAGGAAG
TGAAACGAATGCACAAAGCCGTTCAGAAGGATCTTCCCAGGCCGTCTGAAGTAAATGAAACTATTTTAAGACCTTTCAAT
GTAGAACCACCTCTAACAGATTTACAGAAGAGCGAAGAACTGATCAAAAAAGAAATGATTACGATGCTTCATTATGATCT
TCTACATCATCCCTACGAACCATCTGGAAACAAAAAAGGAAAAAATGTTGGGTTAGCTACCAACGATTCAGAGCACATTA
CCTATCTTGAGCATAGCCCTTATGAGAAGTTCTCCAAAGAAGATCTGAAAAAGGCCCAGGGTGCTCTGGTACAAGAGATG
GAAGTGGTCAAACAAGGAATGAGCCATGGCGAACTCTCCAGTGAAGCTTACAACCAGGTGTGGGAGGAATGCTACAGTCA
AGTCCTCTCTCTTATTGCTCAGAGCCGCTACACTCGCGCTAATCTTGCTAGCAAAAAGGACAGAATTGAATCACTTGAAA
AGAGACTTGAGATAAACAGGGGTCACATGACAACAGAAGCCAAGAGAGCTGCAAAGATGGAAAAGAAGATGAAGATTTTG
CTTGGTGGATACCAGTCTCGTGCTATGGGGCTCATGAAACAGTTGAATGACTTATGGGACCAGATTGAGCAGGCTCACTT
GGAGCTACGCACTTTTGAAGAACTCAAGAAACGTGAAGACTCTGCTATTCCCCGTAGGCTAGAGTGTCTAAAGGAAGATG
TGCAGCTGCAACAGGAACGAGAGAAAGAGCTTCAACAGAGATACGCGGATTTGCTGATGGAGAAAGAGACTTTACAGGCA
AAGTTC
ORF - retro_mmus_677 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.26 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MPRIMIKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEK |
| MPRIMIKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEK | |
| Retrocopy | MPRIMIKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEK |
| Parental | LLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKTAQRDNEEETTDDPRKLKPGEIDPNPETKPARPD |
| LLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLD.TAQRDNEEETTDDPRKLKPGEIDPNPETKPARPD | |
| Retrocopy | LLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDRTAQRDNEEETTDDPRKLKPGEIDPNPETKPARPD |
| Parental | PIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRKKKRGVDY |
| PIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRK.KRGVDY | |
| Retrocopy | PIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRKRKRGVDY |
| Parental | NAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKKDKQHLKRKKESDLPSAIL |
| NAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRK.DKQ.LKRKKESDLPSAIL | |
| Retrocopy | NAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKTDKQRLKRKKESDLPSAIL |
| Parental | QTSGVSEFTKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIAL |
| QTSGVSE.TKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIAL | |
| Retrocopy | QTSGVSELTKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIAL |
| Parental | RTPRTPASQDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTPFRTPSNGA |
| RTPRTPA.QDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTP.RTPSNGA | |
| Retrocopy | RTPRTPAPQDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTPLRTPSNGA |
| Parental | EGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLGLLGLPAPKNDF |
| EGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLG.LGLPAPKNDF | |
| Retrocopy | EGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLGFLGLPAPKNDF |
| Parental | EIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKEMKRMHKAVQKDLPRPSEVNETILRPLN |
| EIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKE.KRMHKAVQKDLPRPSEVNETILRP.N | |
| Retrocopy | EIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKEVKRMHKAVQKDLPRPSEVNETILRPFN |
| Parental | VEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGNKKGKNVGFATNNSEHITYLEHSPYEKFSKEDLK |
| VEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGN.....VG.ATN.SEHITYLEHSPYEKFSKEDLK | |
| Retrocopy | VEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGNXXXXXVGLATNDSEHITYLEHSPYEKFSKEDLK |
| Parental | KAQDALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVLYLPAQSRYTRANLASKKDRIESLEKRLEINR |
| KAQ.ALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVL.L.AQSRYTRANLASKKDRIESLEKRLEINR | |
| Retrocopy | KAQGALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVLSLIAQSRYTRANLASKKDRIESLEKRLEINR |
| Parental | GHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAHLELRTFEELKKHEDSAIPRRLECL |
| GHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAHLELRTFEELKK.EDSAIPRRLECL | |
| Retrocopy | GHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAHLELRTFEELKKREDSAIPRRLECL |
| Parental | KEDVQRQQEREKELQQRYADLLMEKETLQAKF |
| KEDVQ.QQEREKELQQRYADLLMEKETLQAKF | |
| Retrocopy | KEDVQLQQEREKELQQRYADLLMEKETLQAKF |
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 .13 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 33 .39 RPM |
| SRP007412_heart | 0 .00 RPM | 22 .51 RPM |
| SRP007412_kidney | 0 .00 RPM | 27 .07 RPM |
| SRP007412_liver | 0 .00 RPM | 13 .85 RPM |
| SRP007412_testis | 0 .00 RPM | 25 .43 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_677 was not detected
No EST(s) were mapped for retro_mmus_677 retrocopy.
No TSS is located nearby retro_mmus_677 retrocopy 5' end.
retro_mmus_677 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_677 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 11 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000012803 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000023932 | 10 retrocopies |
retro_mmus_604, retro_mmus_605, retro_mmus_675, retro_mmus_676, retro_mmus_677 , retro_mmus_678, retro_mmus_679, retro_mmus_680, retro_mmus_681, retro_mmus_682,
|