RetrogeneDB ID: retro_mmul_137

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:159232856..159233231(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000031426
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000016894
• Aliases: None
• Description: None

Sequence

>retro_mmul_137
TGCAATGCGCTCAAGGACAACAAGAAGAAAGATGCTGGAAAGTTGGCCAAGAAAGACAAAGACCCAGTGAACAAATCCAG
GGACAAGGCCAAAAAGAAGAAGTGGTCCAAAGGCAAAGTTCAGGACAAGCTCAATAACATAGTCTTGTTTGACAAAGCTA
CCTATAACAAACTCTGTAAGGAAGTTCCCAACTATAAACTTATAACCCCAGCTGTGGTCTCTGAGAGACTGAAGATTCAA
GGCTCCCTGGCCAGGGCAGCCCTTCAGGAGCTCCTTAGTAAAGGATTTATCAAACTGGTTTCAAAGCACAGAGCTCAAGT
AATTTACACCAGAAATACAAAGGGTGGAGATGCTCCAGCTGTTGGTGAAGATGCA

Alignment

ORF - retro_mmul_137 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.67 %
• Parental protein coverage: 96.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DKKKKDAGKSAKKDKDPVNKSGGKAKKKKWSKGKVRDKLNNLVLFDKATYDKLCKEVPNYKLITPAVVSE
          D.KKKDAGK.AKKDKDPVNKS..KAKKKKWSKGKV.DKLNN.VLFDKATY.KLCKEVPNYKLITPAVVSE
Retrocopy DNKKKDAGKLAKKDKDPVNKSRDKAKKKKWSKGKVQDKLNNIVLFDKATYNKLCKEVPNYKLITPAVVSE

Parental  RLKIRGSLARAALQELLSKGLIKLVSKHRAQVIYTRNTKGGDAPAAGEDA
          RLKI.GSLARAALQELLSKG.IKLVSKHRAQVIYTRNTKGGDAPA.GEDA
Retrocopy RLKIQGSLARAALQELLSKGFIKLVSKHRAQVIYTRNTKGGDAPAVGEDA

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	14.79 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	24.20 RPM
SRP007412_cerebellum	0.00 RPM	10.85 RPM
SRP007412_heart	0.00 RPM	23.97 RPM
SRP007412_kidney	0.00 RPM	23.59 RPM
SRP007412_liver	0.00 RPM	14.96 RPM
SRP007412_testis	0.00 RPM	14.40 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_137 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_137 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_137 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_301
Pan troglodytes	retro_ptro_245
Gorilla gorilla	retro_ggor_337

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 39 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012395	3 retrocopies	retro_cfam_500, retro_cfam_680, retro_cfam_984,
Felis catus	ENSFCAG00000001151	3 retrocopies	retro_fcat_1792, retro_fcat_601, retro_fcat_903,
Latimeria chalumnae	ENSLACG00000017531	4 retrocopies	retro_lcha_101, retro_lcha_118, retro_lcha_50, retro_lcha_72,
Macropus eugenii	ENSMEUG00000014185	3 retrocopies	retro_meug_1181, retro_meug_1562, retro_meug_174,
Microcebus murinus	ENSMICG00000002687	8 retrocopies	retro_mmur_1023, retro_mmur_1514, retro_mmur_229, retro_mmur_308, retro_mmur_387, retro_mmur_425, retro_mmur_485, retro_mmur_688,
Macaca mulatta	ENSMMUG00000016894	2 retrocopies	retro_mmul_137 , retro_mmul_71,
Ochotona princeps	ENSOPRG00000016194	9 retrocopies	retro_opri_1099, retro_opri_1204, retro_opri_256, retro_opri_320, retro_opri_393, retro_opri_493, retro_opri_64, retro_opri_854, retro_opri_873,
Ictidomys tridecemlineatus	ENSSTOG00000020783	3 retrocopies	retro_itri_1491, retro_itri_196, retro_itri_87,
Vicugna pacos	ENSVPAG00000000266	4 retrocopies	retro_vpac_106, retro_vpac_118, retro_vpac_337, retro_vpac_546,