RetrogeneDB ID: retro_mmur_628

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4292:2097843..2098351(+)
• Located in intron of: ENSMICG00000014076

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_628
ATGGCGGCGCTCAATGGCGCCCTGAGGGATTCAGATAACAGCAATAGCAGCTGCGATGCGTAGGAGCTGACTCGGTGTGG
CGAGGCGGCAATGCCAGCCAGCCTGGGGCTTGGAGCAGCGCCCGCGGGGTCTGGAGGAACCGAGTGCCGGAACTGCACGT
AACCAGTTGGCAGCCTCCCGCCCGAGCCTCAGGCTTAAGGTGGACGAGCACGAACAAGACGGCAACGAGCTTCAGACCAC
CCCTGAATTCCCAGGCCACGTGGCCAAGAAACTGGGAGCCTTACTGGACCGCATCACTGCCATCTCAGAAGCAGTGAAGG
AGCCAAGAAAAGCTGAGGAACAGAAAGTTACCTCGGAGGATGATGGTTTCCGCCTTTTCTTCACATCCATCCCCGGAGGG
CCTGAGAAGGAAGCTTCTCCCAAACCCCACCGGAAGGGGAGTGGCGGCGGTGCCCGGAGACAGCCATGTCGGCATCCGAC
ATCCTGCAGGAGTCCGCCCTGCACGGCC

Alignment

ORF - retro_mmur_628 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.88 %
• Parental protein coverage: 62.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAALNGAMRDSDNSSSSSDAEELARCREAAMPA-WGL-EQRPRGPEEPRAGTARNQLAASHPSLRLKVDE
          MAALNGA.RDSDNS.SS.DA.EL.RC.EAAMPA..GL.EQRPRG.EEP.AGTARNQLAAS.PSLRLKVDE
Retrocopy MAALNGALRDSDNSNSSCDA*ELTRCGEAAMPASLGL>EQRPRGLEEPSAGTARNQLAASRPSLRLKVDE

Parental  HEQDGNELQTTPEFRAHVAKKLGALLDSIITISEAVKEPRKAEVQKVTSEDDGFRLFFTSIPGGPGKEAS
          HEQDGNELQTTPEF..HVAKKLGALLD.I..ISEAVKEPRKAE.QKVTSEDDGFRLFFTSIPGGP.KEAS
Retrocopy HEQDGNELQTTPEFPGHVAKKLGALLDRITAISEAVKEPRKAEEQKVTSEDDGFRLFFTSIPGGPEKEAS

Parental  PKPRRKRQPSSSSEDSDEEWRRCREAAVSA
          PKP.RK................CR.....A
Retrocopy PKPHRKGSGGGARRQPCRHPTSCRSPPCTA

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_628 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_628 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,