RetrogeneDB ID: | retro_mmus_2334 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 4:25307829..25308233(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000083737 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Prdx6 | ||
| Ensembl ID: | ENSMUSG00000026701 | ||
| Aliases: | Prdx6, 1-cysPrx, 9430088D19Rik, AA690119, Aop2, Aop2-rs3, Brp-12, CC26, CP-3, GPx, Ltw-4, Ltw4, Lvtw-4, NSGP, NSGPx, ORF06, Prdx5, Prdx6-rs3, aiPLA2, mKIAA0106 | ||
| Description: | peroxiredoxin 6 [Source:MGI Symbol;Acc:MGI:894320] |
Retrocopy-Parental alignment summary:
>retro_mmus_2334
ATGCCCGAAGGGTTGCTTCCTGGGAACGAAGCCCCCAACTCTGAGACCGATACCACCACCATCCGCATCTACTTCCATGA
TTTCCTGGGAGATTCATGGGACATTCTCTTTTCCCACCCACGGAACTTTACCCCAGTGTGCACCACAGAACTTGGCAGAG
CTGCAAAGCTATCGCCAGAGTTTGCCAAGAGGAACGTTCAGTTGATTGCTCTTCCTGTAGACAGTGTTGAGGATCACCTT
GCCTGGAGCAAGGACATCAATGCTTACAGTGGTACAGCACCCACAGAAAAATTACCATTTCCCATCATCGACGATGAGGA
CAGGGACCTTGCTATCCTTTGGGCATGTTGGATTCAGTAGAGAAGGATGATAATGACATGCCTGTGACCGCCCGTGTGGT
GTTC
ORF - retro_mmus_2334 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.35 % |
| Parental protein coverage: | 60.27 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MPGGLLLGDEAPNFEANTTIGRIRFHDFLGDSWGILFSHPRDFTPVCTTELGRAAKLAPEFAKRNVKLIA |
| MP.GLL.G.EAPN.E..TT..RI.FHDFLGDSW.ILFSHPR.FTPVCTTELGRAAKL.PEFAKRNV.LIA | |
| Retrocopy | MPEGLLPGNEAPNSETDTTTIRIYFHDFLGDSWDILFSHPRNFTPVCTTELGRAAKLSPEFAKRNVQLIA |
| Parental | LSIDSVEDHLAWSKDINAYNGETPTEKLPFPIIDDKGRDLAIL-LGMLDPVEKDANNMPVTARVVF |
| L..DSVEDHLAWSKDINAY.G..PTEKLPFPIIDD..RDLAIL.LGMLD.VEKD.N.MPVTARVVF | |
| Retrocopy | LPVDSVEDHLAWSKDINAYSGTAPTEKLPFPIIDDEDRDLAIL<LGMLDSVEKDDNDMPVTARVVF |
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 .02 RPM | 135 .25 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 85 .11 RPM |
| SRP007412_heart | 0 .00 RPM | 117 .52 RPM |
| SRP007412_kidney | 0 .00 RPM | 134 .69 RPM |
| SRP007412_liver | 0 .03 RPM | 497 .23 RPM |
| SRP007412_testis | 0 .00 RPM | 77 .53 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2334 was not detected
No EST(s) were mapped for retro_mmus_2334 retrocopy.
No TSS is located nearby retro_mmus_2334 retrocopy 5' end.
retro_mmus_2334 was not experimentally validated.