RetrogeneDB ID: retro_mmul_479

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:32646420..32646729(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000017526
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NAA20
• Ensembl ID: ENSMMUG00000007708
• Aliases: None
• Description: None

Sequence

>retro_mmul_479
ACCAACATGGGCCCACTTACAGAAACTTTGTACTTACAGTACCTCACCCACTGGCCAGAGTATTTCATCGCTACAGAGGT
GCTTGGAGAGCTTATGAGTCACATGATGGGTAAAATAAATGTTTCTCTCGTAGCTAGGGAAGAATTTCACAGGCATGCCA
CAGCCTTCTCTGTTGTCCTGGAATTTCCATGCCTTGGTTTGGCCGCTGAACTAATGGAGGAGAATTCAAAAAGAAAGGGT
GATTCTGAAATTGATCTCTTAATAAGAGCACCCAATCATGTTTCAGTCAACATGTACATACAGTTGGGC

Alignment

ORF - retro_mmul_479 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.56 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SNLDPLTETYGIPFYLQYLAHWPEYFIVAEAPGGELMGYIMGKAEGS-VAREEWHGHVTALSVAPEFRRL
          .N..PLTET.....YLQYL.HWPEYFI..E...GELM...MGK...S.VAREE.H.H.TA.SV..EF..L
Retrocopy TNMGPLTET----LYLQYLTHWPEYFIATEVL-GELMSHMMGKINVSLVAREEFHRHATAFSVVLEFPCL

Parental  GLAAKLMELLEEISERKGGFFVDLFVRVSNQVAVNMYKQLG
          GLAA.LME...E.S.RKG....DL..R..N.V.VNMY.QLG
Retrocopy GLAAELME---ENSKRKGDSEIDLLIRAPNHVSVNMYIQLG

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	17.14 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	13.80 RPM
SRP007412_cerebellum	0.00 RPM	13.43 RPM
SRP007412_heart	0.00 RPM	19.84 RPM
SRP007412_kidney	0.00 RPM	15.02 RPM
SRP007412_liver	0.00 RPM	6.45 RPM
SRP007412_testis	0.00 RPM	16.96 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_479 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_479 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_479 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001144	1 retrocopy	retro_btau_899,
Canis familiaris	ENSCAFG00000032025	1 retrocopy	retro_cfam_768,
Callithrix jacchus	ENSCJAG00000005377	4 retrocopies	retro_cjac_1099, retro_cjac_1629, retro_cjac_2984, retro_cjac_439,
Gorilla gorilla	ENSGGOG00000004247	1 retrocopy	retro_ggor_374,
Microcebus murinus	ENSMICG00000006044	1 retrocopy	retro_mmur_540,
Macaca mulatta	ENSMMUG00000007708	1 retrocopy	retro_mmul_479 ,
Mustela putorius furo	ENSMPUG00000001228	2 retrocopies	retro_mputfur_1495, retro_mputfur_321,
Mus musculus	ENSMUSG00000002728	3 retrocopies	retro_mmus_1228, retro_mmus_3146, retro_mmus_3257,
Nomascus leucogenys	ENSNLEG00000009855	1 retrocopy	retro_nleu_2267,
Oryctolagus cuniculus	ENSOCUG00000015481	1 retrocopy	retro_ocun_1331,
Otolemur garnettii	ENSOGAG00000011542	1 retrocopy	retro_ogar_2007,
Pongo abelii	ENSPPYG00000010746	1 retrocopy	retro_pabe_342,
Pan troglodytes	ENSPTRG00000013299	1 retrocopy	retro_ptro_284,
Ictidomys tridecemlineatus	ENSSTOG00000014733	1 retrocopy	retro_itri_1656,
Tupaia belangeri	ENSTBEG00000000969	1 retrocopy	retro_tbel_567,