RetrogeneDB ID: retro_mmur_1119

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_23746:1247..1849(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COX11
• Ensembl ID: ENSMICG00000005225
• Aliases: None
• Description: cytochrome c oxidase assembly homolog 11 (yeast) [Source:HGNC Symbol;Acc:2261]

Sequence

>retro_mmur_1119
CCGAAGAGCAAGAACCCTTTCACTCGCGCGCAGGACTGGCGGCGGCGGCGGCGGAACAAGATGGTCCTCACGTATGTGGC
CGCAGCCCGCAGGCTAGGGGCGTCCTATGCCGCCGTGCCCCTATATCGCCTTTACTGCCAGACTACCGGACTTGGGAGAT
CAGCAGTTGCAGGTCATGCATCAGATCAGATTGAAAACATGGTGCCTGTTAAGGATCGAATAATTAAAGTTACCTTTAAT
GCAGGTGTGCATGCAAGTCTTCAGTGGAACTTTAGACCTCAGCAAACAGAAATATATGTGGTGCCAGGAGAGACTGCACT
GGCATTTTATAAAGCTAAGAATCCTACTGACAAACCAGTAATTGGAATTTCTACATACAACGTTGTTCCATTTGAAGCTG
GGCAGTATTTCAATAAAATACAGTGCTTCTGTTTTGAAGAACAAAGGCTTAATCCCCAAGAGGAAGTAGATATGCAGTGT
TTTTCTACATTGATCCTGAATTTGCTGAAGATCCAAAAATGGTGAATGTCGATCTCATCACGCTTTCTTATACTTTTTTT
GAAGCAAAAGAAGGATACAAATTGCCAGTTCCAGGCTATAAT

Alignment

ORF - retro_mmur_1119 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.16 %
• Parental protein coverage: 73.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PKSTNPFTRAQEEDWRRRNKTVLTYVAAAAVGMLGASYAAVPLYRLYCQTTGLGGSAFAGHASDQIENMV
          PKS.NPFTRAQ....RRRNK.VLTYVAAA....LGASYAAVPLYRLYCQTTGLG.SA.AGHASDQIENMV
Retrocopy PKSKNPFTRAQDWRRRRRNKMVLTYVAAAR--RLGASYAAVPLYRLYCQTTGLGRSAVAGHASDQIENMV

Parental  PVKDRIIKVTFNADVHASLQWNFRPQQTEIYVVPGETALAFYKAKNPTDKPVIGISTYNVVPFEAGQYFN
          PVKDRIIKVTFNA.VHASLQWNFRPQQTEIYVVPGETALAFYKAKNPTDKPVIGISTYNVVPFEAGQYFN
Retrocopy PVKDRIIKVTFNAGVHASLQWNFRPQQTEIYVVPGETALAFYKAKNPTDKPVIGISTYNVVPFEAGQYFN

Parental  KIQCFCFEEQRLNPQEEVDM-PVFFYIDPEFAEDPKMVNVDLITLSYTFFEAKEGYTLPVPGYN
          KIQCFCFEEQRLNPQEEVDM..VFFYIDPEFAEDPKMVNVDLITLSYTFFEAKEGY.LPVPGYN
Retrocopy KIQCFCFEEQRLNPQEEVDM<AVFFYIDPEFAEDPKMVNVDLITLSYTFFEAKEGYKLPVPGYN

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_1119 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1119 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 12 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000008482	1 retrocopy	retro_cpor_1340,
Dasypus novemcinctus	ENSDNOG00000014862	1 retrocopy	retro_dnov_1933,
Dipodomys ordii	ENSDORG00000001207	1 retrocopy	retro_dord_180,
Homo sapiens	ENSG00000166260	1 retrocopy	retro_hsap_3442,
Microcebus murinus	ENSMICG00000005225	1 retrocopy	retro_mmur_1119 ,
Monodelphis domestica	ENSMODG00000014855	1 retrocopy	retro_mdom_952,
Mus musculus	ENSMUSG00000020544	4 retrocopies	retro_mmus_1318, retro_mmus_2318, retro_mmus_2714, retro_mmus_986,
Nomascus leucogenys	ENSNLEG00000007990	1 retrocopy	retro_nleu_2297,
Ochotona princeps	ENSOPRG00000004138	1 retrocopy	retro_opri_441,
Pongo abelii	ENSPPYG00000008259	2 retrocopies	retro_pabe_156, retro_pabe_2847,
Pan troglodytes	ENSPTRG00000009422	1 retrocopy	retro_ptro_2335,
Rattus norvegicus	ENSRNOG00000046318	1 retrocopy	retro_rnor_1515,