RetrogeneDB ID: retro_mmur_492

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3463:288822..290055(-)
• Located in intron of: ENSMICG00000003958

Retrocopy information

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

Parental gene information

• Parental gene symbol: AIFM1
• Ensembl ID: ENSMICG00000016006
• Aliases: None
• Description: apoptosis-inducing factor, mitochondrion-associated, 1 [Source:HGNC Symbol;Acc:8768]

Sequence

>retro_mmur_492
ATATATTTCCAGCCACCTTCTTTCTGTATCTCTGCTCAGGATCTGACTCACATTGAGAATGGTGGTGTGGCTCTCCTCAC
GGGAAAGAAGGTAGTACAGCTGGATGTGAGAGACAACATGGTGAAACTTAATGATGGGTCTCAAATAACCTAAGAAAAGT
GCTTGATTGCAACAGGAGGCACTCCAAGAAGTCTGTCTGCCATTGATAGGGCTGGAGCAGAGGTGAAGAGCAGAACAACA
CTTTTCAGAAAGATTGGAGACTTTAGAGCCTTAGAGAAGATTTCACAGGAAGTCAAGTCAATTATGATTATTGGTGAGGG
CTTCCTTGGTAGCAAACTGGCCTGTGCTCTTGGCAGACAAGCTCAAGCCTTGGGCATAGAAGTGATTCAACTCTTCCCTG
AGAAAGGAAATATGGGAAAGATCCTTCCCTGAATACCTCAGCAACTGGACCATGGAAAAAGTCAGACGAGAGGGGTTAAG
GTGATGCCCGATGCCATTGTGCAATCAGTTGGAGTCAGCGGTGGCAAGTTACTCATCAAGCTAAAAGACGGCAGGAAGGT
AGAAACTGACCACATCGTGGCAGCTGTGGGCCTGGAACCCAATGTTGAGTTGGCCAAGACTGGTGGGCTGGAAATAGACT
CAGATTTTGGTGGCTTCTGGGTAAATGCAGAGCTATAAGCACGCTCTAACATCTGGGTGGCAGGAGATGCTGCATGCTTC
TACGACATAAAGCTGGGGAGGAGGCGGGTAGAGCACCACGATCATGCTGTTGTGAGTGGAAGATTGGCTGGAGAAAATAT
GACCGGAGCTGCTAAGCCATACTGGCATCAGTCAGTGTTCTGGAGTGATTTGGGTCCTGATGTTGGCTATGAAGCTATTG
GTCTTGTGGACAGTAGTTTGGCCACAGTTGGTGTTTTTGCAAAAGCAACTGCACAAGACAACCCAAAATCTGCCACGGAG
CAGTCAGGGACTGGTATCTGATCAGAGAGTGAGACAGAATCTGAGGCCTCAGAAATTGCTATTCCTGCCAGTACTCCTGC
AATTCCACAGGCCCCTGTCCAAGGGGAGGACTATGGCAAAGGTGTCATCTTCTACCTCAGGAACAAAGTGGTCCAGGGGA
TCGTGCTATGGAACATCTTTAGCAGAATGCCAATAGCAGGGAAGATCATTAAGGACGGTGAGCAACATGAAGATCTCAAT
GAAGTAGCCAAACTATTCAACATTCACGAAGAC

Alignment

ORF - retro_mmur_492 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.67 %
• Parental protein coverage: 67.05 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IYFQPPSFYVSAQDLPHIENGGVAVLTGKKVVQLDVRDNMVKLNDGSQITYEKCLIATGGTPRSLSAIDR
          IYFQPPSF..SAQDL.HIENGGVA.LTGKKVVQLDVRDNMVKLNDGSQIT.EKCLIATGGTPRSLSAIDR
Retrocopy IYFQPPSFCISAQDLTHIENGGVALLTGKKVVQLDVRDNMVKLNDGSQIT*EKCLIATGGTPRSLSAIDR

Parental  AGAEVKSRTTLFRKIGDFRALEKISREVKSITIIGGGFLGSELACALGRKAQALGTEVIQLFPEKGNMGK
          AGAEVKSRTTLFRKIGDFRALEKIS.EVKSI.IIG.GFLGS.LACALGR.AQALG.EVIQLFPEKGNMGK
Retrocopy AGAEVKSRTTLFRKIGDFRALEKISQEVKSIMIIGEGFLGSKLACALGRQAQALGIEVIQLFPEKGNMGK

Parental  ILP-EYLSNWTMEKVRRE-GVKVMPDAIVQSVGVSGGKLLIKLKDGRKVETDHIVAAVGLEPNVELAKTG
          ILP.EYLSNWTMEKVRRE.GVKVMPDAIVQSVGVSGGKLLIKLKDGRKVETDHIVAAVGLEPNVELAKTG
Retrocopy ILP>EYLSNWTMEKVRRE<GVKVMPDAIVQSVGVSGGKLLIKLKDGRKVETDHIVAAVGLEPNVELAKTG

Parental  GLEIDSDFGGFRVNAELQARSNIWVAGDAACFYDIKLGRRRVEHHDHAVVSGRLAGENMTGAAKPYWHQS
          GLEIDSDFGGF.VNAEL.ARSNIWVAGDAACFYDIKLGRRRVEHHDHAVVSGRLAGENMTGAAKPYWHQS
Retrocopy GLEIDSDFGGFWVNAEL*ARSNIWVAGDAACFYDIKLGRRRVEHHDHAVVSGRLAGENMTGAAKPYWHQS

Parental  MFWSDLGPDVGYEAIGLVDSSLPTVGVFAKATAQDNPKSATEQSGTGIRSESETESEASEIAIPASTPAI
          .FWSDLGPDVGYEAIGLVDSSL.TVGVFAKATAQDNPKSATEQSGTGI.SESETESEASEIAIPASTPAI
Retrocopy VFWSDLGPDVGYEAIGLVDSSLATVGVFAKATAQDNPKSATEQSGTGI*SESETESEASEIAIPASTPAI

Parental  PQAPVQGEDYGKGVIFYLRDKVVVGIVLWNIFNRMPIARKIIKDGEQHEDLNEVAKLFNIHED
          PQAPVQGEDYGKGVIFYLR.KVV.GIVLWNIF.RMPIA.KIIKDGEQHEDLNEVAKLFNIHED
Retrocopy PQAPVQGEDYGKGVIFYLRNKVVQGIVLWNIFSRMPIAGKIIKDGEQHEDLNEVAKLFNIHED

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_492 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_492 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000018718	1 retrocopy	retro_dnov_767,
Homo sapiens	ENSG00000156709	1 retrocopy	retro_hsap_546,
Gorilla gorilla	ENSGGOG00000007635	1 retrocopy	retro_ggor_497,
Microcebus murinus	ENSMICG00000016006	1 retrocopy	retro_mmur_492 ,
Tarsius syrichta	ENSTSYG00000000060	1 retrocopy	retro_tsyr_615,