RetrogeneDB ID: | retro_mmul_2475 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | X:15660452..15661201(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MDM4 | ||
| Ensembl ID: | ENSMMUG00000011236 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_2475
TGGAATGAGTCAATACTGGAGCAGATAGGTGTTGCAATAAAAGTAGGAGCTACTGCTACTGATAAAACAAGCAAAAAAGT
AGGGAATGTGAGCAACAAAAATGTGATTGATGTAGGAAAAATGAACTTGAGGACTCTCCACCCTTAAAAGATTACACTGA
TATTGAAGTTACTTCTGAGGATGTGTGGTAGTGTTACTGAGTGTAAGAAATTTAACTTTCCAAACAGGAGATGTTTCTGT
TGCAAGGCCTTGAGGAACGATTGGTATTCAGACTCTTCTAAGTTAACCCATTCTCTCTTCATGCCTGTTATCACTGCTGT
ACCCCACAAAACAAGGAAAATGAAGGAAAAAGAAAATAATGTCTCAGATCACCAAAGAACCATTACAGTTCCAGTTGTTA
CAGCCAAAGATCTATATGTAAAGGAAGAAAAAGTCCAACTTCTTCCCTGCAGCTCAGCACATTTCTCGGATTTGGCTCAC
AGTTCTGAAAGCCTAGAAGCCATCTCAAGCTCAGGACAACAATCAGATATCCTTTCAGACCAGAGAGCAGATACAGAATG
CATGGAGGACTGGCAAAACCTCTGGAGGTCATTCGGTATATGTGAGAAAAGACCAGGAGACAGAAATATTATTCATGGAA
GGACAGGCCATCTTGTCATTTATTTTCACTGTGCCAGAAGATTAAAGAAGTCTGGTTTTCATGCCTCCTTTGCAAGAAGA
TTCAACTGGTTATTAAGGTTTTTATGGCA
ORF - retro_mmul_2475 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.48 % |
| Parental protein coverage: | 51.33 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | FERSVSEQLGVGIKVEAGDTEQTSEEVGKVSDKKVIEMG-KNDDLEDSKSLSDDTDVEVTSEDEWQC-TE |
| ...S..EQ.GV.IKV.A..T..TS..VG.VS.K.VI..G.KN..LEDS..L.D.TD.EVTSED.W.C.TE | |
| Retrocopy | WNESILEQIGVAIKVGATATDKTSKKVGNVSNKNVIDVG<KNE-LEDSPPLKDYTDIEVTSEDVW*C>TE |
| Parental | CKKFNSPSKRYCFRCWALRKDWYSDCSKLTHSLSTSDITAIPEK----ENEGNDVPDCRRTISAPVVRPK |
| CKKFN.P..R.CF.C.ALR.DWYSD.SKLTHSL....ITA.P.K........N.V.D..RTI..PVV..K | |
| Retrocopy | CKKFNFPNRR-CFCCKALRNDWYSDSSKLTHSLFMPVITAVPHKTRKMKEKENNVSDHQRTITVPVVTAK |
| Parental | DVYIKKENSKLFDPCNSVEFLDLAHSSESQETISSTGEQLDNLSEQRTDTENMEDCQNLLKPCSLCEKRP |
| D.Y.K.E...L..PC.S..F.DLAHSSES.E.ISS.G.Q.D.LS.QR.DTE.MED.QNL......CEKRP | |
| Retrocopy | DLYVKEEKVQLL-PCSSAHFSDLAHSSESLEAISSSGQQSDILSDQRADTECMEDWQNLWRSFGICEKRP |
| Parental | RDGNIIHGRTGHLVTCFHCARRLKKAG-ASCPICKKEIQLVIKVFIA |
| .D.NIIHGRTGHLV..FHCARRLKK.G..SC..CKK.IQLVIKVF.A | |
| Retrocopy | GDRNIIHGRTGHLVIYFHCARRLKKSG<FSCLLCKK-IQLVIKVFMA |
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 | 12 .77 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 6 .66 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 22 .41 RPM |
| SRP007412_heart | 0 .00 RPM | 4 .48 RPM |
| SRP007412_kidney | 0 .00 RPM | 10 .09 RPM |
| SRP007412_liver | 0 .00 RPM | 4 .43 RPM |
| SRP007412_testis | 0 .00 RPM | 32 .30 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2475 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2475 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_2475 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000001126 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000011236 | 1 retrocopy |
retro_mmul_2475 ,
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