RetrogeneDB ID: | retro_mmus_2851 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 6:89599303..89599666(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Ndufc2 | ||
| Ensembl ID: | ENSMUSG00000030647 | ||
| Aliases: | Ndufc2, 1810004I06Rik, 2010300P09Rik, G1, R75094 | ||
| Description: | NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 2 [Source:MGI Symbol;Acc:MGI:1344370] |
Retrocopy-Parental alignment summary:
>retro_mmus_2851
ATGATGAACGGATGACCTGGCCATGAGCCCTTAAAATTCCTGCCGGATGAGGCCCGGAGCCTGCCCCCGCCCAAGCTGAA
GGACCTGCGGCTTGTCTACATCAGCTTCCTGGGCTACTGCACGGGCCTGATGGACAGCCTGATGAGGATGAGACCTGTGA
TGAAAGCAGGTTTGCATCGCCAGCTTCTGTTTGTTAACTCCTTTTTCTTTGCTGGGTATTTTTATTTAAAATGTTAAGAC
TATTGATGTTTATATGCTGTGAAGGAACATGACATATTTGGCTATATAAAATTACATCCAGAAGATTTTCCTGAAAGAGA
GAAGAAAACTTATGTTGAAATTCTTGAGCCATTCCATCCAGTG
ORF - retro_mmus_2851 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.64 % |
| Parental protein coverage: | 99.17 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MMNGRPGHEPLKFLPDEARSLPPPKLNDPRLVYMGLLGYCTGLMDNMLRMRPVMRAGLHRQLLFVTSFVF |
| MMNG.PGHEPLKFLPDEARSLPPPKL.D.RLVY...LGYCTGLMD...RMRPVM.AGLHRQLLFV.SF.F | |
| Retrocopy | MMNG*PGHEPLKFLPDEARSLPPPKLKDLRLVYISFLGYCTGLMDSLMRMRPVMKAGLHRQLLFVNSFFF |
| Parental | AGYFYLKRQNY--LYAVKDHDMFGYIKLHPEDFPEKEKKTYAEILEPFHPV |
| AGYFYLK...Y..LYAVK.HD.FGYIKLHPEDFPE.EKKTY.EILEPFHPV | |
| Retrocopy | AGYFYLKC*DY*CLYAVKEHDIFGYIKLHPEDFPEREKKTYVEILEPFHPV |
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 | 28 .95 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 30 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 72 .60 RPM |
| SRP007412_kidney | 0 .00 RPM | 55 .32 RPM |
| SRP007412_liver | 0 .00 RPM | 32 .31 RPM |
| SRP007412_testis | 0 .05 RPM | 9 .79 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2851 was not detected
No EST(s) were mapped for retro_mmus_2851 retrocopy.
No TSS is located nearby retro_mmus_2851 retrocopy 5' end.
retro_mmus_2851 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2851 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000029444 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000030647 | 2 retrocopies |
retro_mmus_2851 , retro_mmus_687,
|
| Oryctolagus cuniculus | ENSOCUG00000000958 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000007154 | 1 retrocopy |