RetrogeneDB ID: retro_mmur_1089

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_21404:4652..5859(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: DBT
• Ensembl ID: ENSMICG00000006218
• Aliases: None
• Description: dihydrolipoamide branched chain transacylase E2 [Source:HGNC Symbol;Acc:2698]

Sequence

>retro_mmur_1089
ATGGCTGCAGCTCGAGCGCTGGGGACCTGGAGCCGCAAAGCCAGGCAGCTGATTTGTGTGCGATATTTTCAAGCATTCGG
TAATGTTCATGTTTTGAAGCCAAATTATGTGTGTTTCTTCAGTTATCCTTCATTCAAGCATAGCCATCCACATCAACTTG
TTGAAAACAACTGCTGCCTTACACCGACAAGTTGTTCAGTTCAAACCGTCAGACATTGGAGAAGGGATTAGAGAAGTAAC
TGTTAAAGAATGGTATGTAAAAGAAGGAGATACAGTGTCTCGGTTTGATAGCATCCGTGAAGTACAAGTGATAAAGTTAC
TGTTACCATCACTAGCCACTTTATGATGGAGTCATTAAAAAGCCCTATCATCATCTAGATGATACTGCCTATGTGGGGAA
GCCATTAGTAGACATAGAAACGGAAGCTTTAAAAGATTCAGAAGAAGATGTGGAAACTCCCACCGTGTCACGTGTGAACT
CACACACCAGGAGGTAAAGGGCCAAAAAACACTGACAACTCCTGCAGTTCGCCGCCTTGCAATGGACAACAGTATTAAGC
TGAGTGAAGTTGTTGGCTCCGGAAAAGATGGCAGAATACTTAAAGAAGATATTCTCAACTATGTGGAAAAGCAGACAGGA
GCTATATTACCTCCTTCACCAAAAGCTGAAATTATACCACCTGTGTCAAAACCAAAAGACATGACTATTTCCATACCAGT
GGCAAAACCTCTGGTATTCACAAGCAAAGACAAAACAGAACCCATAAAAGGCTTTCAAAAAGCAATGGTCAAGACTATGT
CTGCAGCCCTGAAGATACCTCACTTTGGCTATTGTGAGGAGGTTGACCTTACTGAACTGGTTAAGCTACGAAAAGAATTA
AAACCCATTGCTTTAGCTCGTGGAATTAAACTCACTTTTATACCCTTCTTCTTAAAGGCTGCATCCTTGGGATTACTACA
GTTTCCCATCCTTAATGCTTCTGTGGATGAAAACTGTCAGAATATAACATATAAGGCTTCTCATAACATTGGGGTAGCAA
TGGATACTGAGCAGGGTTTGATCGTCCCTAATGTGAAAAACGTTTAGGCCTGCTCTGTATTTGAGATTGCCATGGAACTG
GATCATCTCCAGAAATTAGGCTCTGCAGGTCAGCTCAGCACCACTGATCTTACAGGAGGGACATTTACTCTTTCCAACAT
TGGATCA

Alignment

ORF - retro_mmur_1089 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.98 %
• Parental protein coverage: 83.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAAARALRTWGRNARQLVCVRYFQACSNVHVLKPNYVCFFGYPSFKYSHPH-HLLKTTAALHGQVVQFKL
          MAAARAL.TW.R.ARQL.CVRYFQA..NVHVLKPNYVCFF.YPSFK.SHPH..LLKTTAALH.QVVQFK.
Retrocopy MAAARALGTWSRKARQLICVRYFQAFGNVHVLKPNYVCFFSYPSFKHSHPH>NLLKTTAALHRQVVQFKP

Parental  SDIGEGIREVTVKEXXXXXXXXXXXFDSICEVQSDKATVTITSR-YDGVIKKLYYNLDDTAYVGKPLVDI
          SDIGEGIREVTVKE...........FDSI.EVQ..K.........YDGVIKK.Y..LDDTAYVGKPLVDI
Retrocopy SDIGEGIREVTVKEWYVKEGDTVSRFDSIREVQVIKLLLPSLAT>YDGVIKKPYHHLDDTAYVGKPLVDI

Parental  ETEALKDSEEDVVETPAVSHD-EHTHQEIKGQKTLATPAVRRLAMENNIKLSEVVGSGKDGRILKEDILN
          ETEALKDSEEDV.ETP.VS...E.THQE.KGQKTL.TPAVRRLAM.N.IKLSEVVGSGKDGRILKEDILN
Retrocopy ETEALKDSEEDV-ETPTVSRV<ELTHQEVKGQKTLTTPAVRRLAMDNSIKLSEVVGSGKDGRILKEDILN

Parental  YLEKQTGAILPPSPKAEIIPPVSKPKDMTISIPVSKPPVFTGKDRTEPIKGFQKAMVKTMSAALKIPHFG
          Y.EKQTGAILPPSPKAEIIPPVSKPKDMTISIPV.KP.VFT.KD.TEPIKGFQKAMVKTMSAALKIPHFG
Retrocopy YVEKQTGAILPPSPKAEIIPPVSKPKDMTISIPVAKPLVFTSKDKTEPIKGFQKAMVKTMSAALKIPHFG

Parental  YCDEVDLTELVKLREELKPIALARGIKLTFMPFFLKAASLGLLQFPILNASVDENCQNITYKASHNIGIA
          YC.EVDLTELVKLR.ELKPIALARGIKLTF.PFFLKAASLGLLQFPILNASVDENCQNITYKASHNIG.A
Retrocopy YCEEVDLTELVKLRKELKPIALARGIKLTFIPFFLKAASLGLLQFPILNASVDENCQNITYKASHNIGVA

Parental  MDTEQGLIVPNVKNVQACSIFEIATELDRLQKLGSAGQLSTTDLTGGTFTLSNIGS
          MDTEQGLIVPNVKNV.ACS.FEIA.ELD.LQKLGSAGQLSTTDLTGGTFTLSNIGS
Retrocopy MDTEQGLIVPNVKNV*ACSVFEIAMELDHLQKLGSAGQLSTTDLTGGTFTLSNIGS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1089 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1089 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013258	2 retrocopies	retro_chof_52, retro_chof_655,
Microcebus murinus	ENSMICG00000006218	1 retrocopy	retro_mmur_1089 ,
Oryctolagus cuniculus	ENSOCUG00000014244	1 retrocopy	retro_ocun_952,
Otolemur garnettii	ENSOGAG00000005625	1 retrocopy	retro_ogar_2997,