RetrogeneDB ID: | retro_mmul_974 | ||
Retrocopylocation | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 12:102469872..102470180(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSMMUG00000031112 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | RBX1 | ||
| Ensembl ID: | ENSMMUG00000012642 | ||
| Aliases: | None | ||
| Description: | ring-box 1, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:9928] |
Retrocopy-Parental alignment summary:
>retro_mmul_974
GCAGCGAGGGATGTGGATGCCCCGAGCGGCACCAACAGCGGCGCGGACAAGAAGCGCTTTGAAGTGAAAAAGTGGAATGC
AATAGCCCTCTGGGCCTGGGATATTGTGGTTGATAACTGTGCCATCTGCAGGAACCACATTATGGATCTTTGCATAGAAT
GTCAAGCTAACCAGGCATCCGCTACTTCAGAAGAATGTACGGTCGCATGGGGAGTCTATAATCAAGCTTTTCATTCCACT
GCATCTCTCGCTGGCTCAAAACAGGACAGGTGTGTCCATTGGACAACAGAGAGTGGGAATTCCAACAG
GCAGCGAGGGATGTGGATGCCCCGAGCGGCACCAACAGCGGCGCGGACAAGAAGCGCTTTGAAGTGAAAAAGTGGAATGC
AATAGCCCTCTGGGCCTGGGATATTGTGGTTGATAACTGTGCCATCTGCAGGAACCACATTATGGATCTTTGCATAGAAT
GTCAAGCTAACCAGGCATCCGCTACTTCAGAAGAATGTACGGTCGCATGGGGAGTCTATAATCAAGCTTTTCATTCCACT
GCATCTCTCGCTGGCTCAAAACAGGACAGGTGTGTCCATTGGACAACAGAGAGTGGGAATTCCAACAG
ORF - retro_mmul_974 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.58 % |
| Parental protein coverage: | 98.1 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | AAMDVDTPSGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCGGCRNHQKAYCIECQANQASATSEECTVAW |
| AA.DVD.PSGTNSGA.KKRFEVKKWNA.ALWAWDIVVDNC..CRNH....CIECQANQASATSEECTVAW | |
| Retrocopy | AARDVDAPSGTNSGADKKRFEVKKWNAIALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAW |
| Parental | GVCNHAFH-FHCISRWLKTRQVCPLDNREWEFQK |
| GV.N.AFH.FHCISRWLKT.QVCPLDNREWEFQ. | |
| Retrocopy | GVYNQAFH<FHCISRWLKTGQVCPLDNREWEFQQ |
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 | 8 .96 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .08 RPM | 16 .26 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 12 .72 RPM |
| SRP007412_heart | 0 .00 RPM | 10 .13 RPM |
| SRP007412_kidney | 0 .00 RPM | 12 .56 RPM |
| SRP007412_liver | 0 .00 RPM | 7 .01 RPM |
| SRP007412_testis | 0 .00 RPM | 12 .36 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_974 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_974 was not experimentally validated.