RetrogeneDB ID: | retro_mmus_3363 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 9:85789769..85790325(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | Qprt | ||
| Ensembl ID: | ENSMUSG00000030674 | ||
| Aliases: | None | ||
| Description: | quinolinate phosphoribosyltransferase [Source:MGI Symbol;Acc:MGI:1914625] |
Retrocopy-Parental alignment summary:
>retro_mmus_3363
TGCAGTGGGATTGCCAGCACAGCAGCGACAGCTGTGGAGGTAGCCAGGAGCACTGATTGGACAGGATGCGTGGCGGGCAC
CAGGAAGACCATGCCAGGGTTCCAACTGGTAGAGACGTATGGGCTCCTAGTAGGTGGGGCTGAGTGTCACCACTAAGACC
AGGATGGGTTGGTAATGGAGAAGGACAACCACCACTTACTTGGTGGCAGCCTGCGGCATGAAAAAGGCAGTGCTGAAGAC
GCCCCAGGCAGCCATATCTCCCTGAAGGTAGAGATGGAATGTAGCAGCCTAAAGGAGGCCTTGCAGGAGCAGAGGCTGGG
ACTGACCTGCTGGGCAGCTTCAAACCTAAGGAGCTGCACCCCACAGTAGCTGCACTTAAAGCCAAATTCCCCAGGGTGAC
TGTGGAAGCCAGTGGGGACATCACACTGAGCAACCTCCACCAGGTCTGTGGAACACACATTGACATCATGCCATTGGGAA
TGCTGACCCAGGCTTCTCCAGGCCTGGATTTTCCCCTCAAACTGTCTGCTGAAGGAGAGACTCAGTGCCTCATGCC
TGCAGTGGGATTGCCAGCACAGCAGCGACAGCTGTGGAGGTAGCCAGGAGCACTGATTGGACAGGATGCGTGGCGGGCAC
CAGGAAGACCATGCCAGGGTTCCAACTGGTAGAGACGTATGGGCTCCTAGTAGGTGGGGCTGAGTGTCACCACTAAGACC
AGGATGGGTTGGTAATGGAGAAGGACAACCACCACTTACTTGGTGGCAGCCTGCGGCATGAAAAAGGCAGTGCTGAAGAC
GCCCCAGGCAGCCATATCTCCCTGAAGGTAGAGATGGAATGTAGCAGCCTAAAGGAGGCCTTGCAGGAGCAGAGGCTGGG
ACTGACCTGCTGGGCAGCTTCAAACCTAAGGAGCTGCACCCCACAGTAGCTGCACTTAAAGCCAAATTCCCCAGGGTGAC
TGTGGAAGCCAGTGGGGACATCACACTGAGCAACCTCCACCAGGTCTGTGGAACACACATTGACATCATGCCATTGGGAA
TGCTGACCCAGGCTTCTCCAGGCCTGGATTTTCCCCTCAAACTGTCTGCTGAAGGAGAGACTCAGTGCCTCATGCC
ORF - retro_mmus_3363 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.84 % |
| Parental protein coverage: | 62.21 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | CSGIASAAATAVEVARSTGWTGHVAGTRKTTPGFRLVEKYGLQVGGAACHRYDLGGMVMVKDNHVVAAGS |
| CSGIAS.AATAVEVARST.WTG.VAGTRKT.PGF.LVE.YGL.VGGA.CH..D..G.VM.KDNH....GS | |
| Retrocopy | CSGIASTAATAVEVARSTDWTGCVAGTRKTMPGFQLVETYGLLVGGAECHH*DQDGLVMEKDNHHLLGGS |
| Parental | MERAVLKARQAAG--FSLKVEVECSSLEEAFR-AAEAGADLVMLDNFKPEELHPTAATLKARFPSVSVEA |
| .......A..A.G...SLKVE.ECSSL.EA....AEAG.DL..L..FKP.ELHPT.A.LKA.FP.V.VEA | |
| Retrocopy | LRHEKGSAEDAPGSHISLKVEMECSSLKEALQ<GAEAGTDL--LGSFKPKELHPTVAALKAKFPRVTVEA |
| Parental | SGGVTLDNLTQFCGTHIDVISLGMLTQAAPALDFSLKLFAEGDT-PVPHA |
| SG..TL.NL.Q.CGTHID...LGMLTQA.P.LDF.LKL.AEG.T..VPHA | |
| Retrocopy | SGDITLSNLHQVCGTHIDIMPLGMLTQASPGLDFPLKLSAEGET<SVPHA |
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 | 0 .33 RPM |
| SRP007412_cerebellum | 0 .09 RPM | 0 .87 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .25 RPM |
| SRP007412_kidney | 0 .00 RPM | 25 .22 RPM |
| SRP007412_liver | 0 .00 RPM | 85 .56 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .05 RPM |
RNA Polymerase II actvity near the 5' end of retro_mmus_3363 was not detected
No EST(s) were mapped for retro_mmus_3363 retrocopy.
No TSS is located nearby retro_mmus_3363 retrocopy 5' end.
retro_mmus_3363 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3363 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 | ENSMUSG00000030674 | 1 retrocopy |
retro_mmus_3363 ,
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