RetrogeneDB ID: | retro_mmus_2794 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 6:140420170..140420652(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Atp5h | ||
| Ensembl ID: | ENSMUSG00000034566 | ||
| Aliases: | Atp5h, 0610009D10Rik | ||
| Description: | ATP synthase, H+ transporting, mitochondrial F0 complex, subunit d [Source:MGI Symbol;Acc:MGI:1918929] |
Retrocopy-Parental alignment summary:
>retro_mmus_2794
ATGGCTGGGCGTAAACTTGCTCTAAAAACCATTGATTGGGTATCTTTTGTGGAGATCATGCCCCCAAACCAGAAGGCAAT
TGGAAAAGCCCTGAAGTCCTGGAATGAGACCTTCCACACCAGGTTGGCTAGTCTGTCTGAGAAACCACCTGCGATTGACT
GGGCTTTCTACAGGGCCAATGTGGCCAAGCCTGGCTTGGTGGATGATTTTGAAAAGCAGTATAATGCCCTGAAGATCCCT
GTGCCTGAGGATAAACACACAGCCCTGGTGGACAGGAGGAGACGGGGGATGTGAAGAGCTGTGCTGAGTTTGCGTCTGGA
CCTCAGCTCAGGACCCAGGAGTGTGAGAAGCAGCTGGAGAAAACGAGGAACACAATTCCCTTTGACCAGATGACCAGTGA
TGACTCGAATGAGATCTTCCCAGAAGCCAAGCTGGACAAGAAGAAGTACCCGTACTGGCCCCACCAGCCCATCGAGAGCC
TA
ORF - retro_mmus_2794 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.65 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAGRKLALKTIDWVSFVEVMPQNQKAIGNALKSWNETFHARLASLSEKPPAIDWAYYRANVAKPGLVDDF |
| MAGRKLALKTIDWVSFVE.MP.NQKAIG.ALKSWNETFH.RLASLSEKPPAIDWA.YRANVAKPGLVDDF | |
| Retrocopy | MAGRKLALKTIDWVSFVEIMPPNQKAIGKALKSWNETFHTRLASLSEKPPAIDWAFYRANVAKPGLVDDF |
| Parental | EKKYNALKIPVPEDKYTALVD-QEEKEDVKSCAEFVSGSQLRIQEYEKQLEKMRNIIPFDQMTIDDLNEI |
| EK.YNALKIPVPEDK.TALVD.QEE..DVKSCAEF.SG.QLR.QE.EKQLEK.RN.IPFDQMT.DD.NEI | |
| Retrocopy | EKQYNALKIPVPEDKHTALVD<QEETGDVKSCAEFASGPQLRTQECEKQLEKTRNTIPFDQMTSDDSNEI |
| Parental | FPETKLDKKKYPYWPHQPIENL |
| FPE.KLDKKKYPYWPHQPIE.L | |
| Retrocopy | FPEAKLDKKKYPYWPHQPIESL |
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 | 86 .98 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 92 .53 RPM |
| SRP007412_heart | 0 .06 RPM | 368 .68 RPM |
| SRP007412_kidney | 0 .08 RPM | 241 .89 RPM |
| SRP007412_liver | 0 .00 RPM | 91 .29 RPM |
| SRP007412_testis | 0 .00 RPM | 58 .45 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2794 was not detected
No EST(s) were mapped for retro_mmus_2794 retrocopy.
No TSS is located nearby retro_mmus_2794 retrocopy 5' end.
retro_mmus_2794 was not experimentally validated.