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 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]

Sequence

>retro_mmus_2659
GACACACTGTCAGCCCAGGACATGTTCTGAAAACAAACTGACTTTGGATAGGCCCAAGAGCAGCTGGAGGAGATAAGAAC
ATTCTACCAGCCAGAAAGAGCAAGCATCTCAAGTCTTGTTTGCTTTCATCACCTTCAATATTTTAGAGCTATGGCCTATA
CCTGGACTTAAAAAACATCAAGAGAAACCATGACAGATTCAAGGAAGATTTTCTTCAGGGTGGTGAAACTGGAGGATACT
GTAAACTTGACAGTCACGCACTGGTGTCTGAAGGTCAGCTCCAAGAGCCCTCTACAGTCTTGCTTTGCTGAGCTACAAAA
CTACACTTAGCTCAATTTCAGGCCTATTGAAAATGCTAAATGTAACATTGCTGTTGAAAACCCAACACATTTTATGAAAT
TAGATGTAGATATTAGCATGTACCACTACTTGTATGATTTCCTGAATCTCTATATCACTCATCAAATTAACATTTCTTTC
AGTTCAGAGGTTTAAATTGTGATGTGCGACATCAGCTCTTATGCATATGGTGACCTCTTCGCCAATACCTGGAAAGCATT
TACTTAATATGATAACATACATTTGAAGACCTTTGATTCCAAAAAGAGGTCTTTTAAAGAAGCCGTGTTTTTGTTGCTGC
CCTGCATGTGGAATGGGCTGTTCTATAACACACCTCTAATCTCTAGCTGTCAGAATACTGGATTATTTAGAGCCTTCACC
CAGCATGTGCTGCATAGGCTGAACATCACTCAAGAGGTACCCAAGGATGTTTGAAGTACCATTCTTGCACCCAGCACAGA
ACACCAGAAAAATCCTGAACCAAAATGAACTGGTAAACGCATTGAAAACAGTATCCACATTTGAAGTCCATGTGGTTGAT
TACAAGTACAGAGAACTCGGTATTTTAGATCAGCTCAGGATCATGTACAACATGGAAATATTTATTGGCATG

Alignment

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

Expression

RNA-Seq

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

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_2659 was not detected

EST

No EST(s) were mapped for retro_mmus_2659 retrocopy.

TSS

No TSS is located nearby retro_mmus_2659 retrocopy 5' end.

Lab

retro_mmus_2659 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_2659 has 0 orthologous retrocopies within eutheria group .

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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,