RetrogeneDB ID: | retro_mmus_622 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 10:22153282..22154416(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000044268 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Ube2q2 | ||
| Ensembl ID: | ENSMUSG00000032307 | ||
| Aliases: | Ube2q2, 3010021M21Rik | ||
| Description: | ubiquitin-conjugating enzyme E2Q (putative) 2 [Source:MGI Symbol;Acc:MGI:2388672] |
Retrocopy-Parental alignment summary:
>retro_mmus_622
ATGTCCGCGTCAGGGCTTAAGGCCGAGCTGAAGTTCCTGGCGTCCATCTTCGACAAGAACCTCGAGCGATTCCGCATCAT
CAGCTGGAAGCTGGACGAGCTGCACTGCCAGTTCCTGGTGCCGCAGCCGCCACCACCGCCGGGCAGCTCGCTTTCGCCGC
CGCCGCCGCTCACACTTCACTGCAACATCACGGAATCTTACCCATCTTCATCACCAATATGGTTTGTGGACTCTGATGAC
CCAAATCTGACATCAGTTCTGGAACGCTTAGAAGATACTAAGAACAACAGTTCGCTCCGTCAGCAATTGAAGTGGTTGAT
ATGTGACCTCTGCAGATTATATAACCTTCCTAAGCACCTGGATGTTGAGATGCTAGATCAACCCTTACCCACGGGTCAGA
ATGGGACAACTGAAGAAGTAACTTCAGAAGAAGAGGAAGAGGAGGAGATGGCTGAAGATATAGAAGACTTGGATCACTAT
GAGATGAAGGAAGAAGAACCTATTAATGGGGAAAAGTCAGAGGATGAAGGGATTGAAAAAGAAAATTTGGCAATATTAGA
GAAAATCAGGAAGACTCAATGGCAAGACCATTTAAATGGTGCAGTGTCTGGGTCAGTACAAGCATCAGACAGACTGATGA
AGGAGCTCAGGGACGTCTACAGATCACAGAGCTACAAGGCAGGGATTTATTCAGTGGAGCTAATAAATGACAGCTTATAT
GACTGGCATGTCAAACTACACAAGGTTGACTCTGATAGTCCTTTGCACAGTGATCTTCAGATCTTAAAAGAAAAAGAAGG
CATAGAATATATTTTGCTTAACTTCTCTTTTAAGGATAATTTTCCATTTGATCCTCCGTTTGTTAGAGTGGTGTTACCTG
TTCTCTCAGGAGGGTATGTGTTGGGTGGAGGAGCACTGTGTATGGAACTTCTCACAAAACAGGGCTGGAGCAGTGCCTAC
TCAATAGAATCTGTCATCATGCAGATCAATGCCACCTTAGTGAAAGGCAAAGCCCGGGTGCAGTTTGGAGCAAATAAGAA
TCAGTATAATCTAGCACGAGCCCAACAGTCCTATAATTCCATTGTACAGATACATGAGAAAAATGGCTGGTACACACCTC
CAAAGGAAGATGGC
ORF - retro_mmus_622 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.41 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSVSGLKAELKFLASIFDKNHERFRIVSWKLDELHCQFLVPPPPPPPGSSLSPPPPLTLHCNITESYPSS |
| MS.SGLKAELKFLASIFDKN.ERFRI.SWKLDELHCQFLVP.PPPPPGSSLSPPPPLTLHCNITESYPSS | |
| Retrocopy | MSASGLKAELKFLASIFDKNLERFRIISWKLDELHCQFLVPQPPPPPGSSLSPPPPLTLHCNITESYPSS |
| Parental | SPIWFVDSDDPNLTSVLERLEDTKNNSSLRQQLKWLICDLCRLYNLPKHLDVEMLDQPLPTGQNGTTEEV |
| SPIWFVDSDDPNLTSVLERLEDTKNNSSLRQQLKWLICDLCRLYNLPKHLDVEMLDQPLPTGQNGTTEEV | |
| Retrocopy | SPIWFVDSDDPNLTSVLERLEDTKNNSSLRQQLKWLICDLCRLYNLPKHLDVEMLDQPLPTGQNGTTEEV |
| Parental | TSEEEEEEEMAEDIEDLDHYEMKEEEPINGKKSEDEGIEKENLAILEKIRKTQRQDHLNGAVSGSVQASD |
| TSEEEEEEEMAEDIEDLDHYEMKEEEPING.KSEDEGIEKENLAILEKIRKTQ.QDHLNGAVSGSVQASD | |
| Retrocopy | TSEEEEEEEMAEDIEDLDHYEMKEEEPINGEKSEDEGIEKENLAILEKIRKTQWQDHLNGAVSGSVQASD |
| Parental | RLMKELRDVYRSQSYKAGIYSVELINDSLYDWHVKLHKVDSDSPLHSDLQILKEKEGIEYILLNFSFKDN |
| RLMKELRDVYRSQSYKAGIYSVELINDSLYDWHVKLHKVDSDSPLHSDLQILKEKEGIEYILLNFSFKDN | |
| Retrocopy | RLMKELRDVYRSQSYKAGIYSVELINDSLYDWHVKLHKVDSDSPLHSDLQILKEKEGIEYILLNFSFKDN |
| Parental | FPFDPPFVRVVLPVLSGGYVLGGGALCMELLTKQGWSSAYSIESVIMQINATLVKGKARVQFGANKNQYN |
| FPFDPPFVRVVLPVLSGGYVLGGGALCMELLTKQGWSSAYSIESVIMQINATLVKGKARVQFGANKNQYN | |
| Retrocopy | FPFDPPFVRVVLPVLSGGYVLGGGALCMELLTKQGWSSAYSIESVIMQINATLVKGKARVQFGANKNQYN |
| Parental | LARAQQSYNSIVQIHEKNGWYTPPKEDG |
| LARAQQSYNSIVQIHEKNGWYTPPKEDG | |
| Retrocopy | LARAQQSYNSIVQIHEKNGWYTPPKEDG |
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 .23 RPM | 40 .44 RPM |
| SRP007412_cerebellum | 0 .35 RPM | 34 .87 RPM |
| SRP007412_heart | 0 .03 RPM | 19 .71 RPM |
| SRP007412_kidney | 0 .10 RPM | 23 .95 RPM |
| SRP007412_liver | 0 .05 RPM | 15 .84 RPM |
| SRP007412_testis | 0 .23 RPM | 37 .28 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_622 was not detected
No EST(s) were mapped for retro_mmus_622 retrocopy.
No TSS is located nearby retro_mmus_622 retrocopy 5' end.
retro_mmus_622 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_622 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000032307 | 3 retrocopies |
retro_mmus_156, retro_mmus_3421, retro_mmus_622 ,
|
| Oryctolagus cuniculus | ENSOCUG00000022720 | 1 retrocopy |