RetrogeneDB ID: retro_mmur_84

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_115:815813..816287(-)
• Located in intron of: ENSMICG00000001972

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12orf43
• Ensembl ID: ENSMICG00000008728
• Aliases: None
• Description: chromosome 12 open reading frame 43 [Source:HGNC Symbol;Acc:25719]

Sequence

>retro_mmur_84
ATGGCGGCGCTCAATGGCGCCATGAGGGATTCGGACAACAGCAGTAGCAGCAGCGATATGGAGGAGCTGGCTCGGTGTCG
CGAGGCTGCGATGCCGGCCTGGGGCTTGGAGCAGCGCCCGCGGGGGCCGGAGGAACCAGGAGCCGGAACTGCACGAAGCC
GGCTGGCAGCCTCCCACCCGAGCCTGCGGCTTAAGGTGGACGAGCACGAACCAGACGGCAACGAGCCTCAGACCAGCCCT
GAATTCCGAGCCCACGTGGCCAAGAAACTGGGAGCCGTACTGGACAGCATCATTGCCATCGCAGAAGCAGTGAAGGAGCC
AAGAAAAGCTGAGGTACAGAAAGTCACCTCGGAGGATGATGGTTTCCGCCTTTCCTTCGCATCCGTCCCCGGAGGGCCTG
AGAAGGAAGCTTCTCCCAAACGCCACCGGAAGCGCCAGCCCTCCAGCTCCAGCGGCGAGGACAGCGATGAGGAC

Alignment

ORF - retro_mmur_84 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.61 %
• Parental protein coverage: 58.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAALNGAMRDSDNSSSSSDAEELARCREAAMPAWGLEQRPRGPEEPRAGTARNQLAASHPSLRLKVDEHE
          MAALNGAMRDSDNSSSSSD.EELARCREAAMPAWGLEQRPRGPEEP.AGTAR..LAASHPSLRLKVDEHE
Retrocopy MAALNGAMRDSDNSSSSSDMEELARCREAAMPAWGLEQRPRGPEEPGAGTARSRLAASHPSLRLKVDEHE

Parental  QDGNELQTTPEFRAHVAKKLGALLDSIITISEAVKEPRKAEVQKVTSEDDGFRLFFTSIPGGPGKEASPK
          .DGNE.QT.PEFRAHVAKKLGA.LDSII.I.EAVKEPRKAEVQKVTSEDDGFRL.F.S.PGGP.KEASPK
Retrocopy PDGNEPQTSPEFRAHVAKKLGAVLDSIIAIAEAVKEPRKAEVQKVTSEDDGFRLSFASVPGGPEKEASPK

Parental  PRRKRQPSSSS-EDSDEE
          ..RKRQPSSSS.EDSDE.
Retrocopy RHRKRQPSSSSGEDSDED

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_84 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_84 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000000382	1 retrocopy	retro_dnov_1611,
Microcebus murinus	ENSMICG00000008728	2 retrocopies	retro_mmur_628, retro_mmur_84 ,
Tarsius syrichta	ENSTSYG00000009317	2 retrocopies	retro_tsyr_2056, retro_tsyr_257,