RetrogeneDB ID: | retro_mmul_1651 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 3:181408721..181409698(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MMU.10117 | ||
| Ensembl ID: | ENSMMUG00000006171 | ||
| Aliases: | None | ||
| Description: | monocarboxylate transporter 1 [Source:RefSeq peptide;Acc:NP_001244633] |
Retrocopy-Parental alignment summary:
>retro_mmul_1651
ATGCCACCAGCAGTTGGAAGTTAAGTTGGATACACCCCTTCAGACGGAGGTTGGGGTGGGCAGTTTAGTGGAAGCTTTCA
TTTCCATCAACTTCTCTCAGCATTTCTCAAATATATTACTGTTTTCTTCAAAGAGATGGAAGGTCTATTCCATGCCACCA
CCAGCGAAGTGTTACAGATGTGCTCCGTCATGCTGGCTGTTACGTAAGGTGGAGGTCTCATCAGCAGTATCTTGGTGAAT
AATGCGACAGTCGTTCAGTCATGACTGTTGGTGTTGCTTGTCAGGCTGTGGTTGATTGTGGCTTCTTTCTGTAACATTAT
GCAGGAACTTTACTTGTGTATTGGAATCATTGGAGGTCTTGGGCTTTCCTTTAACTTGAACCTAGCTTTGACCATGATTG
GCAAGCATTTCTATATGAAGTGACCACTGGCCATCAGACTGGCCATGGCGGGCAGCCTCTCTATGCTGGCCCCCTCAATC
AGGCTTTCTTTGGTATCTGTGGATGGAGAGGAAGCTTCCTAACTCTTGGGGGCTTCCTACTAAACTGCTGTGTAGCTAGA
GACCTGATGTGACCAATAACGTCCAAGCCAACGAAGGCAGGGAAAGAGGTCTAAAGAATTCCTTCAGGAAGCCGAAAAAT
CAGATGCAAAGAAAGGTACAGGTGATACAAATACAGATATTATTGGAGGACACCCCAAAGAAGGGAAATGATTAATCTTC
CAAACAATTAATACATTCCTGTACTTATCCCTGTTTACTCAGAGAGATTTTTTGCTGTATCTCTCTGGAAATGTGCTCAC
ATTTTTCTGGACTCTTTACACCTTTGGCGTTTCTTAATAATTATGACAAGAGTCGGTATCATTCCAGGAGCACTCTGCCT
TCCTTCTTTCCCTTCTGGCTTTTGTTGATACACAGCAAGGACTTCTATGGGACTTGCAGCCAACAGAAAGCGGATAAGGT
CTCAGGTTCTCAAGTTC
ORF - retro_mmul_1651 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.89 % |
| Parental protein coverage: | 66.4 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 11 |
Retrocopy - Parental Gene Alignment:
| Parental | MPPAVGGPVGYTPPDGGWG-WAV-VIGAFISIGFSY-AFPKSITVFFKEIESIFHATTSEVSWISSIMLA |
| MPPAVG..VGYTP.DGGWG.WAV....AFISI.FS..AF.K.ITVFFKE.E..FHATTSEV....S.MLA | |
| Retrocopy | MPPAVGS*VGYTPSDGGWG<WAV<LVEAFISINFSQ<AFLKYITVFFKEMEGLFHATTSEVLQMCSVMLA |
| Parental | VMYGGGPISSILVNKY-GSRIVMIIGG-CLSGCG-LIAASFCNTVQELYFCIGFVGGLGLAFNLNPALTM |
| V..GGG.ISSILVN....SR.VM..G..CLSGCG.LI.ASFCN..QELY.CIG..GGLGL.FNLN.ALTM | |
| Retrocopy | VT*GGGLISSILVNNA<DSRSVMTVGV<CLSGCG<LIVASFCNIMQELYLCIGIIGGLGLSFNLNLALTM |
| Parental | IGKYFYKRRPLANGLAMA-GSPVFLCTLAPLNQVFFGIFGWRGSFLILGGLLLNCCVAGALMRPIGPKPT |
| IGK.FY...PLA..LAMA.G.P.......PLNQ.FFGI.GWRGSFL.LGG.LLNCCVA..LM.PI..KPT | |
| Retrocopy | IGKHFYMK*PLAIRLAMA<GQPLYA---GPLNQAFFGICGWRGSFLTLGGFLLNCCVARDLM*PITSKPT |
| Parental | KA-GKDKSKASLQKAGKSGVKKGRHDANTDLIGRHPKREKRSVFQTINQFLDLTLFTHRGFLLYLSGNVI |
| KA.GK..SK..LQ.A.KS..KKG..D.NTD.IG.HPK..K...FQTIN.FL.L.LFT.R.FLLYLSGNV. | |
| Retrocopy | KA>GK-RSKEFLQEAEKSDAKKGTGDTNTDIIGGHPKEGK*LIFQTINTFLYLSLFTQRDFLLYLSGNVL |
| Parental | MFF-GLFAPLVFLSSYGKSQHYS-SEKSAFLLSILAFVD-MVARPSMGLVANTKPIRPRIQYF |
| .FF.GLF.PL.FL..Y.KS...S..E.SAFLLS.LAFVD...AR.SMGL.AN.K.IR.....F | |
| Retrocopy | TFF>GLFTPLAFLNNYDKSRYHS<QEHSAFLLSLLAFVD<YTARTSMGLAANRKRIRSQVLKF |
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 | 10 .08 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 8 .65 RPM |
| SRP007412_cerebellum | 0 .06 RPM | 21 .31 RPM |
| SRP007412_heart | 0 .00 RPM | 100 .75 RPM |
| SRP007412_kidney | 0 .12 RPM | 10 .92 RPM |
| SRP007412_liver | 0 .00 RPM | 11 .16 RPM |
| SRP007412_testis | 0 .00 RPM | 58 .61 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1651 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1651 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1651 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 | ENSMMUG00000006171 | 1 retrocopy |
retro_mmul_1651 ,
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