RetrogeneDB ID: | retro_mmus_1747 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 18:4198218..4198698(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000073647 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Gm6483 | ||
| Ensembl ID: | ENSMUSG00000087153 | ||
| Aliases: | None | ||
| Description: | predicted gene 6483 [Source:MGI Symbol;Acc:MGI:3644574] |
Retrocopy-Parental alignment summary:
>retro_mmus_1747
ATGACAACCCTCCAGAGTTTCTGCATGAAATCTATCATACCAATGTGCCTGAGAGGTCCAATGTGGGTAGGAACATCAGT
TATCCAAGTGACAGCCTCTGATGCAGATAATCCCACCTATGGAAAAAGTGCCAAGTTAGTGTATAGCATCCTTGAAGGAC
AACCCTACTTCTCAGTGGAGGCCCAAACAGGAATCATCAGGACAGCCCTTCCCAATATGGACAGAGAAGCCAAGGAGGAG
TACCACGTGGTGATCCAGGCTAAGGACATGGGTGGACACATGGGTGGACTCTCAGGGACAACCAGAGTGACGATCACTCT
GACTGATGTCAACGACAACTCAGCAAAGTTTCCACAGAGTAAAGAGTCGAAGCTGGTCTTTGATAATGACCACTGCTCAG
CGAGAGCCTCATCTTTTCTTTCACTCCTAATTTACCCAGCTTTCAAAAGGAAGAGTCTGGAAATCCAAGAATCATTTTCG
ORF - retro_mmus_1747 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.75 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MTTLQSFCMKSIIPMCLRGPMWVGTSVIQVTASDADNPTYGKSAKLVYSILEGQPYFSVEAQTGIIRTAL |
| MTTLQSFCMKSIIPMCLRGPMWVGTSVIQVTASDADNPTYGKSAKLVYSILEGQPYFSVEAQTGIIRTAL | |
| Retrocopy | MTTLQSFCMKSIIPMCLRGPMWVGTSVIQVTASDADNPTYGKSAKLVYSILEGQPYFSVEAQTGIIRTAL |
| Parental | PNMDREAKEEYHVVIQAKDMGGHMGGLSGTTKVTITLTDVNDNSAKFPQSKESKLVFDNDHCSARASSFH |
| PNMDREAKEEYHVVIQAKDMGGHMGGLSGTT.VTITLTDVNDNSAKFPQSKESKLVFDNDHCSARASSF. | |
| Retrocopy | PNMDREAKEEYHVVIQAKDMGGHMGGLSGTTRVTITLTDVNDNSAKFPQSKESKLVFDNDHCSARASSFL |
| Parental | SLLIYPAFKRKSLEIQESFS |
| SLLIYPAFKRKSLEIQESFS | |
| Retrocopy | SLLIYPAFKRKSLEIQESFS |
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 | 1 .59 RPM | 4 .72 RPM |
| SRP007412_cerebellum | 2 .82 RPM | 10 .73 RPM |
| SRP007412_heart | 0 .68 RPM | 1 .49 RPM |
| SRP007412_kidney | 1 .15 RPM | 4 .70 RPM |
| SRP007412_liver | 0 .96 RPM | 2 .68 RPM |
| SRP007412_testis | 4 .07 RPM | 4 .44 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_1747 was not detected
No EST(s) were mapped for retro_mmus_1747 retrocopy.
No TSS is located nearby retro_mmus_1747 retrocopy 5' end.
retro_mmus_1747 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1747 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000087153 | 1 retrocopy |
retro_mmus_1747 ,
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