RetrogeneDB ID: retro_mmur_565

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3879:699851..700523(+)
• Located in intron of: ENSMICG00000008884

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS5
• Ensembl ID: ENSMICG00000007318
• Aliases: None
• Description: mitochondrial ribosomal protein S5 [Source:HGNC Symbol;Acc:14498]

Sequence

>retro_mmur_565
ATGGCGGCCGCAGTGCGCTCTGTGTGCCGCTTCCCTGCGCTGTGCGGCGGGTCTGCGGTTCATTTATGGACCAGGCAGCT
TTCTCTAAATGCCTGTCCAGCAACTTCCATTTTGGTATTGAAGCCCACTCTCAGCAATGGTCCTTTGTGATTGCTGGCAA
CCAGAGACAACCGTCAGTACACCAGCTTGAGCCACGCACTGCAGGCACAGTGCTGTATTTCTTCTCCCAGTGATTTGATG
GGTCAGCAGTACAGACTATATAGTTTCTTCACTAAATTGACAGCAGATGAGCTATGGAAAGGTGCTCTAGCAGAGAGTGG
TGCTGGAGCAAGAAAATGAAGAGGCAAAAGAACTAAGAAAAAGAGAAGAAAGGATTTGAACAGGGGTCAGATCATTGGTG
AAGGGCGTCGTGGTTTCCTGTGGCCTGGTCTGAATGTTCCTCTTATGAAAAATGGAGCAGTTCAGACCATTGCCCAAAGA
AGCAAGGAAGAGCAGGAGAAGGTGGAGGCTGACATAATACAGCAGAGAGAAGAGTGGGAACGGAAGAGGAAGATGAAGGT
TAAACGGGAGCGAGGATGGAGCGGGAATTCATGGGGCGGCGTCAGTCTTGGCCCTCCTGACCCTGGTCCCAATGGAGAAA
CATATGAGGATTTTGATACCAGGATACTTGAG

Alignment

ORF - retro_mmur_565 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.98 %
• Parental protein coverage: 52.09 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAAAVRAVCRFPALCGGAAVHLWSRQLSLNACPATSILALKPTLSNGPLSLLATRDNRQYTSLSHALQAQ
          MAAAVR.VCRFPALCGG.AVHLW.RQLSLNACPATSIL.LKPTLSNGPL.LLATRDNRQYTSLSHALQAQ
Retrocopy MAAAVRSVCRFPALCGGSAVHLWTRQLSLNACPATSILVLKPTLSNGPL*LLATRDNRQYTSLSHALQAQ

Parental  CCISSPSDLMGQQYRPYSFFTKLTADELWKGALAESGAGARKGRGKRTKKKRRKDLNRGQIIGEGRRGFL
          CCISSPSDLMGQQYR.YSFFTKLTADELWKGALAESGAGARK.RGKRTKKKRRKDLNRGQIIGEGRRGFL
Retrocopy CCISSPSDLMGQQYRLYSFFTKLTADELWKGALAESGAGARK*RGKRTKKKRRKDLNRGQIIGEGRRGFL

Parental  WPGLNVPLMKNGAVQTIAQRSKEEQEKVEADMVQQREEWERKRKMKVKRERGWSGNSWGGVSLGPPDPGP
          WPGLNVPLMKNGAVQTIAQRSKEEQEKVEAD..QQREEWERKRKMKVKRERGWSGNSWGGVSLGPPDPGP
Retrocopy WPGLNVPLMKNGAVQTIAQRSKEEQEKVEADIIQQREEWERKRKMKVKRERGWSGNSWGGVSLGPPDPGP

Parental  NGETYEDFDTRILE
          NGETYEDFDTRILE
Retrocopy NGETYEDFDTRILE

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_565 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_565 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018942	1 retrocopy	retro_cjac_2129,
Homo sapiens	ENSG00000144029	1 retrocopy	retro_hsap_3116,
Gorilla gorilla	ENSGGOG00000001750	1 retrocopy	retro_ggor_2139,
Microcebus murinus	ENSMICG00000007318	1 retrocopy	retro_mmur_565 ,
Macaca mulatta	ENSMMUG00000016239	2 retrocopies	retro_mmul_2110, retro_mmul_2251,
Mus musculus	ENSMUSG00000027374	1 retrocopy	retro_mmus_2014,
Nomascus leucogenys	ENSNLEG00000000002	1 retrocopy	retro_nleu_1438,
Pongo abelii	ENSPPYG00000012051	1 retrocopy	retro_pabe_2574,
Pan troglodytes	ENSPTRG00000012209	1 retrocopy	retro_ptro_2107,