RetrogeneDB ID: | retro_mmul_1980 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 5:136165898..136166375(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ETNK1 | ||
| Ensembl ID: | ENSMMUG00000006643 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_1980
ATGACTTATTTGAAGGAGATTCTCTCCAACATGGGCTCATCAGTTGTGCTTTTCATAATGACCTATTTTGCACAAATGCA
ATCAACAAAGAGAAACAAAGTGACATACAGTTCGATGATTGTGAACATTCTAGATACAACTACCTAGCGCATGATATTAG
AAGTCATTTTAATACATTTGTAGGTGTGCTTTATATAGCCTTAGTCTCTATCCAGGCAAAGAACTACAGGGCCCATGGCT
GCATTCTTACCTTGAAGTCTACAAAACGTATAAGGACTTTGGAATTAAATTTACTAAAAAGACGGTAGACATATTCTTTA
TTCAAGTCAATCAGTTTGCATTGGCCTCTAGTTTCTTTTGGAACTGTGAACTTTCATTCCAGCCAAATACTACACTAAGT
TGTATTTCCTTGAGTGTGCAATAGTTCATTTTAACCAATACTTCAAAATAAAGCCTGAGATTGCTGCGTCAAGAGTG
ORF - retro_mmul_1980 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.83 % |
| Parental protein coverage: | 51.6 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | MTWMKEILSNLGSPVVLC-HNDLLCKNIIYNEKQGRYLTLAVSYPSYVYVLKFFSVFFFSSKGVSDV-DY |
| MT..KEILSN.GS.VVL..HNDL.C.N.I..EKQ............Y.Y........F....GV...... | |
| Retrocopy | MTYLKEILSNMGSSVVLF<HNDLFCTNAINKEKQSDIQFDDCEHSRYNYLAHDIRSHFNTFVGVLYI<SL |
| Parental | SLYPDRELQSQWLRAYLEAYKEFKGFGTEVTEKEVEILFIQVNQFALASHFFWG-LWALIQAKYSTIEFD |
| SLYP..ELQ..WL..YLE.YK..K.FG...T.K.V.I.FIQVNQFALAS.FFW..L...I.AKY.T.... | |
| Retrocopy | SLYPGKELQGPWLHSYLEVYKTYKDFGIKFTKKTVDIFFIQVNQFALASSFFWN<L*TFIPAKYYT-KLY |
| Parental | FLGYAIVRFNQYFKMKPEVTALKV |
| FL..AIV.FNQYFK.KPE..A..V | |
| Retrocopy | FLECAIVHFNQYFKIKPEIAASRV |
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 | 11 .54 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 8 .88 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 7 .23 RPM |
| SRP007412_heart | 0 .00 RPM | 1 .18 RPM |
| SRP007412_kidney | 0 .00 RPM | 11 .27 RPM |
| SRP007412_liver | 0 .00 RPM | 3 .33 RPM |
| SRP007412_testis | 0 .00 RPM | 11 .91 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1980 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1980 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1980 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000006643 | 1 retrocopy |
retro_mmul_1980 ,
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