RetrogeneDB ID: | retro_mmul_522 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 1:118561586..118562113(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TSPAN12 | ||
| Ensembl ID: | ENSMMUG00000023310 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_522
TACTTTGGAAGTTTACTTGTCATTTTTTGTGCAGATCTGGCTAGTGGCATTTGGACATATGAAGAGAAGTGTATGATTCC
AGTACAGTGGTTAGATGTAGTCACTTTGAAAGTCAGAGTGGCAAATATGACTTACCTGGATACCAGTGGCTTACTCATGG
TTGGAAGGTTTTCAGTGGGAGTTTAAGTGTTGTGGAGTGGTATGTTTCAATGACTAGTTGGAAATGACAGAGACGGACTA
GCCCCCAGAATCCTGCTATGCTAGAGAATTCCCAGGATGTTCCAAACAAACCCACCAGGAAGATCTCAGTGACCTTTATC
AAGAGGATTGTGGTAAGAAAAATGTTTCCTTTTGAAAGGAACCAAACAATCACAGGCGCTAAGGTTTCTGGGAATTTCCA
TTAAAGTGACATAAACCTGGCCATGATTCTCACCACGACTTAGCTCTGGGCTCTGTATTATGAGAGAAGGGAGCCTGAGA
CAGACCAAATGATATTCCTGAAGCTCCTCTCAGCAACCCATGTCACT
ORF - retro_mmul_522 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.61 % |
| Parental protein coverage: | 58.03 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | YFGSLLVIFCVELACGVWTYEQELMVPVQWSDMVTLKARMTN-YGLPRYRWLTHAWNFF-QREFKCCGVV |
| YFGSLLVIFC..LA.G.WTYE...M.PVQW.D.VTLK.R..N.Y.LP.Y.WLTH.W..F.Q.EFKCCGVV | |
| Retrocopy | YFGSLLVIFCADLASGIWTYEEKCMIPVQWLDVVTLKVRVAN<YDLPGYQWLTHGWKVF<QWEFKCCGVV |
| Parental | YFTDWLEMTEMDWPPDSCCVREFPGCSKQAHQEDLSDLYQEGCGKKMYSF-LRGTKQLQVLRFLGISIGV |
| .F.D.LEMTE.D.PP.SC..REFPGCSKQ.HQEDLSDLYQE.CGKK..SF.L.GTKQ.Q.LRFLGISI.V | |
| Retrocopy | CFND*LEMTETD*PPESCYAREFPGCSKQTHQEDLSDLYQEDCGKKNVSF<LKGTKQSQALRFLGISIKV |
| Parental | TQI-LAMILTITLLWALYYDRREPVTDQMMSLKNENSQHLS |
| T...LAMILT.T.LWALYY.RREP.TDQM..LK.....H.. | |
| Retrocopy | T*T<LAMILTTT*LWALYYERREPETDQMIFLKLLSATHVT |
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 | 1 .90 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 1 .90 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 3 .23 RPM |
| SRP007412_heart | 0 .00 RPM | 18 .61 RPM |
| SRP007412_kidney | 0 .00 RPM | 22 .89 RPM |
| SRP007412_liver | 0 .00 RPM | 5 .15 RPM |
| SRP007412_testis | 0 .00 RPM | 2 .30 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_522 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_522 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_522 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 | ENSMMUG00000023310 | 1 retrocopy |
retro_mmul_522 ,
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