RetrogeneDB ID: retro_mmur_637

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_433:848225..849205(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFAF1
• Ensembl ID: ENSMICG00000016845
• Aliases: None
• Description: NADH dehydrogenase (ubiquinone) complex I, assembly factor 1 [Source:HGNC Symbol;Acc:18828]

Sequence

>retro_mmur_637
ATGGCTTTGGTTCGCAAATTGCTGAATGACATTTAAATTCTCAGAAAATGTCCAAAGTCAAGTGCTGCTTTGCATCCATT
TTTGGGTATTCACTTTGCAGACTGTTGTTCCAGTAGTCTTCAGAAACCAGTGGCTGCTTCTGGAAAGCTTCCCAATGAGA
AAACTGAATGTAAGTTTGCAGGGACAACACCAGAAGGAAGCTGCCTTGAATATAACTTCTCCTGAGTAGAAGCCTGAGGT
TAGTTTTGATAAAGCAGTTAAAGATGAAATAAAGGACCAGTTTTGGCATTTGAAGGATGAACTTGTGAATCATTGGATAG
GGCTGGAAGGCTGTCCTCTGCATGAGATCTTGCTGGAACAAGCCAAGGTTGTCTGGCAGTTCCATAGGAAAGAAGATCTG
GATAAGTGGATAGTGACTTCTGATAAGACAATGGGAGGCAGAAGTGAATTGTTCTTGAAAATGGGCAAGAATAACCAAAG
TGTACTACTCTATGGAACTTTAAGCTACGAGGTGCCTTGGAATGGGGAGAGTAGCTGAAGTGGGCACTGTGCAATGATGT
CCAGAATTCAAAGGGCCCTTTTCAGAGGAAGAAGTGTTATGACTGGTCCCAGTTCAACACTCTATGTCTCCATGTCTGTG
GGGATGGTTGGTTTTGGACGGTGAATATCAGGGAGGACATGGATATAATTCAGAGGAAGTATCACATGTACAGTTACTTC
ATGTTTATACCCATGGGGGGCCCCACTGGCAGGGGGTCAAGATTCCTTTTTCCAGATTTTTCTTCTTGAATCAAGGAAGA
ATCTGGGATATTCAATGTCAGCTTCTGTTTGACAAGATCTCTTCTATAGGATTCACCGTGGCAGATAAAGTGGATGGTCC
ATTCTTCCTAGAAATAGATTTTATTGGAGTATTTACCAATGCGATTCACACAGAAGAATTTGCGTATGAAAATTATTCAG
AACTTAACATAAGAATTTTT

Alignment

ORF - retro_mmur_637 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.49 %
• Parental protein coverage: 99.7 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MALIHKLLNGTCILRKCPKQSTALHPFLSIHFADYCSSSLQKPEAAPG-KAFSQRKTEGGLQGHHQKEGA
          MAL..KLLN...ILRKCPK.S.ALHPFL.IHFAD.C.SS......A.....F..RK....LQG.HQKE.A
Retrocopy MALVRKLLNDI*ILRKCPKSSAALHPFLGIHFAD-CCSSSLQKPVAAS>ESFPMRKLNVSLQGQHQKEAA

Parental  LDITSPEETPEISFDKAIRDEMKDHFRRLKDEIVNHWIGPEGRPLHEVLLEKAKVVWQFRGKEDLDKWMV
          L.ITSPE..PE.SFDKA..DE.KD.F..LKDE.VNHWIG.EG.PLHE.LLE.AKVVWQF..KEDLDKW.V
Retrocopy LNITSPE*KPEVSFDKAVKDEIKDQFWHLKDELVNHWIGLEGCPLHEILLEQAKVVWQFHRKEDLDKWIV

Parental  TSDKTIGGRSEVFLKMGKNNQSALLYGTLSTEAPQDGDSSRSGYCAMISRIPR-GAFERRMSYDWSNFNT
          TSDKT.GGRSE.FLKMGKNNQS.LLYGTLS.E.P..G.SS.SG.CAM.SRI.R.G.F.R...YDWS.FNT
Retrocopy TSDKTMGGRSELFLKMGKNNQSVLLYGTLSYEVPWNGESS*SGHCAMMSRIQR<GPFQRKKCYDWSQFNT

Parental  LYLRVRGDGRPWMVNIREDTDLIQRKNQMYSYFMF-TRGG-PYWQEIKIPFSKFFFSNQGRIRDVQSQLL
          L.L.V.GDG..W.VNIRED.D.IQRK..MYSYFMF...GG.P.WQ..KIPFS.FFF.NQGRI.D.Q.QLL
Retrocopy LCLHVCGDGWFWTVNIREDMDIIQRKYHMYSYFMFIPMGG<PHWQGVKIPFSRFFFLNQGRIWDIQCQLL

Parental  LDKISSIGFTLADKVDGPFFLEIDFIGVFSDPAHIEEFAYENSPEISPRLF
          .DKISSIGFT.ADKVDGPFFLEIDFIGVF....H.EEFAYEN..E...R.F
Retrocopy FDKISSIGFTVADKVDGPFFLEIDFIGVFTNAIHTEEFAYENYSELNIRIF

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_637 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_637 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000025980	1 retrocopy	retro_ggor_1492,
Microcebus murinus	ENSMICG00000016845	1 retrocopy	retro_mmur_637 ,
Nomascus leucogenys	ENSNLEG00000003587	1 retrocopy	retro_nleu_2733,
Pongo abelii	ENSPPYG00000006373	2 retrocopies	retro_pabe_1683, retro_pabe_1684,
Pan troglodytes	ENSPTRG00000006945	1 retrocopy	retro_ptro_1383,