RetrogeneDB ID: retro_mmul_115

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 15:46316919..46317642(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000018233
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MMU.2818
• Ensembl ID: ENSMMUG00000007391
• Aliases: None
• Description: None

Sequence

>retro_mmul_115
ATGGCTATGGCTAGTGTTAAATTGCTTGCTGGTGTTTTAAGAAAGCCAGATGCCTGGATTGGACTCTGGGGTGTTCTCCG
AGGGACACCTGCGTCATACAAACTCTGTACTTCCTGGAATCGATACTTGTATTTTTCTAGTACCAAGTTACGTGCACCAA
ATTATAAAACACTTTTTTATAATATTTTCTCACTGAGACTCCCAGGACTTTTACTATCTCCAGAATATATTTTTCCTTTT
TCCATAAGACTCAAAAGTAATATAAGCTCTACAAAATCTACTAAAAAGTCTCTGCATAAAGTAGATGAAGAGGACTCTGA
TGAAGAAAGCGATCATGAGGAGATGAGTGAGCAGGAAGAGGAGCTTGAGGATGACCCCACTGTAGTCAAAGACTATAAAG
ACCTGGAAAAAGCAGTGCAGTCTTTTTGGTATGATGTTGTCTTGAAGACGGGGCTAGATATTGGGAGAAACAAAGTGGAA
GATGCATTCTACAAAGGTGAACTCACGCTGAATGAGGAAAAATTATGGAAGAAAAGCAGAACGGTGAAAGTGGGAGATAC
ATTGGATCTTCTCATTGGAGAGGATAAAGAAGCAGGAACAGAGACAGTTATGCGGATTCTCTTGAAAAAAGTGTTTGAAG
AGAAGACTGAAAGTGAAAAATACAGAGTGGTGTTATGGTGGTGGAAAAGTTTACAGTTGCCTAAGAAGAGAACATCTAAA
TAA

Alignment

ORF - retro_mmul_115 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.83 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAMASVKLVAGVLRKPDAWIGLWGVLRGTPASYKLCTSWNRYLYFSSTKLRAPNYKTLFYSIFSLRLPGL
          MAMASVKL.AGVLRKPDAWIGLWGVLRGTPASYKLCTSWNRYLYFSSTKLRAPNYKTLFY.IFSLRLPGL
Retrocopy MAMASVKLLAGVLRKPDAWIGLWGVLRGTPASYKLCTSWNRYLYFSSTKLRAPNYKTLFYNIFSLRLPGL

Parental  LLSPEYIFPFSIRLKSNISSTKSTKKSLHKVDEEDSDEESDHDEMSEQEEELEDDPTVVKDYKDLEKAVQ
          LLSPEYIFPFSIRLKSNISSTKSTKKSLHKVDEEDSDEESDH.EMSEQEEELEDDPTVVKDYKDLEKAVQ
Retrocopy LLSPEYIFPFSIRLKSNISSTKSTKKSLHKVDEEDSDEESDHEEMSEQEEELEDDPTVVKDYKDLEKAVQ

Parental  SFRYDVILKTGLDIGRNKVEDAFYKGQLRLNEEKLWKKSRTVKVGDTLDLLIGEDKEAGTETVMRILLKK
          SF.YDV.LKTGLDIGRNKVEDAFYKG.L.LNEEKLWKKSRTVKVGDTLDLLIGEDKEAGTETVMRILLKK
Retrocopy SFWYDVVLKTGLDIGRNKVEDAFYKGELTLNEEKLWKKSRTVKVGDTLDLLIGEDKEAGTETVMRILLKK

Parental  VFEEKTESEKYRVVLRRWKSLKLPKKRTSK
          VFEEKTESEKYRVVL..WKSL.LPKKRTSK
Retrocopy VFEEKTESEKYRVVLWWWKSLQLPKKRTSK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	9.30 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	5.71 RPM
SRP007412_cerebellum	0.00 RPM	6.84 RPM
SRP007412_heart	0.00 RPM	8.30 RPM
SRP007412_kidney	0.00 RPM	7.39 RPM
SRP007412_liver	0.00 RPM	1.86 RPM
SRP007412_testis	0.04 RPM	1.81 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_115 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_115 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_115 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003732	1 retrocopy	retro_cfam_1818,
Homo sapiens	ENSG00000130349	1 retrocopy	retro_hsap_3538,
Gorilla gorilla	ENSGGOG00000006113	1 retrocopy	retro_ggor_2389,
Macropus eugenii	ENSMEUG00000013534	1 retrocopy	retro_meug_2181,
Microcebus murinus	ENSMICG00000004137	1 retrocopy	retro_mmur_1269,
Macaca mulatta	ENSMMUG00000007391	1 retrocopy	retro_mmul_115 ,
Nomascus leucogenys	ENSNLEG00000013450	2 retrocopies	retro_nleu_1433, retro_nleu_499,
Otolemur garnettii	ENSOGAG00000008839	2 retrocopies	retro_ogar_1396, retro_ogar_390,
Pongo abelii	ENSPPYG00000016885	1 retrocopy	retro_pabe_2922,
Pan troglodytes	ENSPTRG00000018464	2 retrocopies	retro_ptro_1453, retro_ptro_2405,
Tursiops truncatus	ENSTTRG00000008837	2 retrocopies	retro_ttru_324, retro_ttru_432,