RetrogeneDB ID: | retro_mmul_350 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | X:69029886..69030753(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMMUG00000017757 | |
| Aliases: | OTUD6A, DUBA-2 | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MMU.3994 | ||
| Ensembl ID: | ENSMMUG00000013396 | ||
| Aliases: | None | ||
| Description: | OTU domain-containing protein 6B [Source:RefSeq peptide;Acc:NP_001253025] |
Retrocopy-Parental alignment summary:
>retro_mmul_350
ATGGATGATCCGAAGAGTGAACAGCAGCGCATACTGCGCCGCCACCAACGCGAGAAGAAGGAGCTGCAGGCCCAGATCCA
GAGCTTAAAAAACTCGGTCCCCAAGACCGATAAGAAGAAAAGAAAGCAGTTGCTCCAAGACGTGGCCCGCATGGAGGCCG
AGATGGCGCAGAAGCACCGGCAGGAGCTGGAGAAGTTCCAGGACGACAGTAGCGTTGAATCTGTCGTCGAAGACCTGGCC
AAGATGGATCTGGAAAACCGGCCTCCCCGCCCCTCCAAAGCCCAGAGAAAGCGAGAAAGAATGGAGTCCCAGGAGAGGGA
GCGCCAGGAGAGCATCTTCCAGGCCGAGATGTCCGAGCACCTGGCCGGCTTCAGGCGCGAGGAGGAGGAGAAGCTCGCCG
ACATCCTGGGAGCCAGAGGTCTGGAGATGAAGGAGATCCCGGCCGACGGCCACTGCATGTACCGCGCCATCCAAGACCAG
CTGGTGTTCAGCGTGTCGGTGGAGATGCTGCGCTGCCGCACCGCCAGCTACATGCAGAAGCACGTCGACGAGTTCCTGCC
CTTCTTCAGCAACCCGGAGACCGGCGACCCCTTCGGCTACGACGACTTCATGATCTACTGCGACAACATCGTGCGCACCG
CGGCATGGGGAGGCCAGCTGGAGCTGAGGGCCCTGTCGCACGTCCTGAAGACCCCCATCGAGGTGATCCAGGCCAACTCG
CCCACCTTGGTCATCGGGGAGGAGTACGTCAAGAAGCCGATCATCCTGGTCTACCTGCACTACGCCTACAGCCTCGGCGA
GCACTACAACTCCGTGAGACCGCTCGAGGCCGGCGCCGCCGGGGGCGCGCTCCCGCGTCTCCGGTAG
ORF - retro_mmul_350 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 56.96 % |
| Parental protein coverage: | 53.58 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EEEQLVRRHRKEKKELQAKIQGMKNAVPKNDKKRRKQLTEDVAKLEKEMEQKHREELEQLKLTTKENKID |
| E.....RRH..EKKELQA.IQ..KN.VPK.DKK.RKQL..DVA..E.EM.QKHR.ELE............ | |
| Retrocopy | EQQRILRRHQREKKELQAQIQSLKNSVPKTDKKKRKQLLQDVARMEAEMAQKHRQELEKFQ---DDSSVE |
| Parental | SVAVNISNLVLENQPPRISKAQKRREKKAALEKEREERIAEAEI-ENLSGARHMESEKLAQILAARQLEM |
| SV........LEN.PPR.SKAQ..RE.....E.ER.E.I..AE..E.L.G.R..E.EKLA.IL.AR.LEM | |
| Retrocopy | SVVEDLAKMDLENRPPRPSKAQRKRERMESQERERQESIFQAEMSEHLAGFRREEEEKLADILGARGLEM |
| Parental | KQIPSDGHCMYRAIEDQL |
| K.IP.DGHCMYRAI.DQL | |
| Retrocopy | KEIPADGHCMYRAIQDQL |
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 | 13 .56 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 9 .44 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 14 .34 RPM |
| SRP007412_heart | 0 .00 RPM | 7 .95 RPM |
| SRP007412_kidney | 0 .00 RPM | 6 .81 RPM |
| SRP007412_liver | 0 .00 RPM | 1 .90 RPM |
| SRP007412_testis | 4 .26 RPM | 1 .85 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_350 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_350 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_350 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Oryctolagus cuniculus | retro_ocun_29 |
| Sus scrofa | retro_sscr_52 |