RetrogeneDB ID: | retro_mmus_2659 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 5:87191913..87192865(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Eogt | ||
| Ensembl ID: | ENSMUSG00000035245 | ||
| Aliases: | Eogt, A130022J15Rik, AI447490, AW214473, AW259391, Aer61 | ||
| Description: | EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase [Source:MGI Symbol;Acc:MGI:2141669] |
Retrocopy-Parental alignment summary:
>retro_mmus_2659
GACACACTGTCAGCCCAGGACATGTTCTGAAAACAAACTGACTTTGGATAGGCCCAAGAGCAGCTGGAGGAGATAAGAAC
ATTCTACCAGCCAGAAAGAGCAAGCATCTCAAGTCTTGTTTGCTTTCATCACCTTCAATATTTTAGAGCTATGGCCTATA
CCTGGACTTAAAAAACATCAAGAGAAACCATGACAGATTCAAGGAAGATTTTCTTCAGGGTGGTGAAACTGGAGGATACT
GTAAACTTGACAGTCACGCACTGGTGTCTGAAGGTCAGCTCCAAGAGCCCTCTACAGTCTTGCTTTGCTGAGCTACAAAA
CTACACTTAGCTCAATTTCAGGCCTATTGAAAATGCTAAATGTAACATTGCTGTTGAAAACCCAACACATTTTATGAAAT
TAGATGTAGATATTAGCATGTACCACTACTTGTATGATTTCCTGAATCTCTATATCACTCATCAAATTAACATTTCTTTC
AGTTCAGAGGTTTAAATTGTGATGTGCGACATCAGCTCTTATGCATATGGTGACCTCTTCGCCAATACCTGGAAAGCATT
TACTTAATATGATAACATACATTTGAAGACCTTTGATTCCAAAAAGAGGTCTTTTAAAGAAGCCGTGTTTTTGTTGCTGC
CCTGCATGTGGAATGGGCTGTTCTATAACACACCTCTAATCTCTAGCTGTCAGAATACTGGATTATTTAGAGCCTTCACC
CAGCATGTGCTGCATAGGCTGAACATCACTCAAGAGGTACCCAAGGATGTTTGAAGTACCATTCTTGCACCCAGCACAGA
ACACCAGAAAAATCCTGAACCAAAATGAACTGGTAAACGCATTGAAAACAGTATCCACATTTGAAGTCCATGTGGTTGAT
TACAAGTACAGAGAACTCGGTATTTTAGATCAGCTCAGGATCATGTACAACATGGAAATATTTATTGGCATG
ORF - retro_mmus_2659 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 76.78 % |
| Parental protein coverage: | 60.72 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | DTLESAQDMFWRQADFGYARERLGEIRTICQPERASDSSLVCSRYLQYCRAT-GLYLDLRNIKRNHDRFK |
| DTL.SAQDMF..Q.DFG.A.E.L.EIRT..QPERAS.SSLVC...LQY.RA..GLYLDL.NIKRNHDRFK | |
| Retrocopy | DTL-SAQDMF*KQTDFG*AQEQLEEIRTFYQPERASISSLVCFHHLQYFRAM<GLYLDLKNIKRNHDRFK |
| Parental | EDFLQGGEIGGYCKLDSHALVSEGQ-RKSPLQSWFAELQGYTQLNFRPIEDAKCDIVVEKPTYFMKLDAG |
| EDFLQGGE.GGYCKLDSHALVSEGQ..KSPLQS.FAELQ.YT.LNFRPIE.AKC.I.VE.PT.FMKLD.. | |
| Retrocopy | EDFLQGGETGGYCKLDSHALVSEGQ>SKSPLQSCFAELQNYT*LNFRPIENAKCNIAVENPTHFMKLDVD |
| Parental | INMYHHFCDFLNLYLTQHVNNSFSTDVYIVMWDTSTYGYGDLFSDTWKAFTDYDVIHLKTYDSKKVCFKE |
| I.MYH...DFLNLY.T...N.SFS..V.IVM.D.S.Y.YGDLF..TWKAFT.YD.IHLKT.DSKK..FKE | |
| Retrocopy | ISMYHYLYDFLNLYITHQINISFSSEV*IVMCDISSYAYGDLFANTWKAFT*YDNIHLKTFDSKKRSFKE |
| Parental | AVFSLLPRMRYGLFYNTPLISGCQNTGLFRAFSQHVLHRLNITQEGPKDGKVRVTILARSTEY-RKILNQ |
| AVF.LLP.M..GLFYNTPLIS.CQNTGLFRAF.QHVLHRLNITQE.PKD..V..TILA.STE..RKILNQ | |
| Retrocopy | AVFLLLPCMWNGLFYNTPLISSCQNTGLFRAFTQHVLHRLNITQEVPKD--V*STILAPSTEH>RKILNQ |
| Parental | DELVNALKTVSTFEVRVVDYKYRELGFLDQLRITHNTDIFIGM |
| .ELVNALKTVSTFEV.VVDYKYRELG.LDQLRI..N..IFIGM | |
| Retrocopy | NELVNALKTVSTFEVHVVDYKYRELGILDQLRIMYNMEIFIGM |
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 | 28 .25 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 24 .75 RPM |
| SRP007412_heart | 0 .06 RPM | 19 .89 RPM |
| SRP007412_kidney | 0 .00 RPM | 26 .56 RPM |
| SRP007412_liver | 0 .00 RPM | 5 .76 RPM |
| SRP007412_testis | 0 .00 RPM | 5 .17 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2659 was not detected
No EST(s) were mapped for retro_mmus_2659 retrocopy.
No TSS is located nearby retro_mmus_2659 retrocopy 5' end.
retro_mmus_2659 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2659 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000035245 | 2 retrocopies |
retro_mmus_2659 , retro_mmus_2661,
|