RetrogeneDB ID: retro_mmul_1299

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 17:66455806..66456247(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB1A
• Ensembl ID: ENSMMUG00000015208
• Aliases: None
• Description: MOB kinase activator 1A [Source:HGNC Symbol;Acc:16015]

Sequence

>retro_mmul_1299
AACAGTGTGGATTTTTTCTACCAGAATACTAAAGAATTATCTTCTGAAGCAAGCTGTCCAGTCATGTCTGCATATCCAAA
ATATAAATATTATTTGGCAGGTGATATTAATATTAAAAAGTTAATCAAATATACTGTTCTAAAATGCGTGCATTATTTTG
ATGACTTTGGTTCTAAATCAGCCTGATGACACTCATTTTCCTTCTAAGATTACTGTCCCATTTCCCCATATCTCTGCAAC
AAAGTCTATTTATTCTCAAGTGTTTGTTTACGGTTTATACCTGTATTTATCAGCAGCACATTGATTCTGTCATGCAAAAG
GAGAGGAAGCCCACTTAGACACTTTCTTAAGCACTTAATTTTCTTTGTTTAAGAACTCAATCTGATTGATAAGGATGAGT
TGACACCTCTTTAGGAATTAATTGAGAAGCTTGGAACAAAG

Alignment

ORF - retro_mmul_1299 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.21 %
• Parental protein coverage: 69.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  NQINMLYGTITEFCTEASCPVMSAGPRYEYHWADGTNIKKPIKCSAPKYIDY-LMTWVQDQLDDETLFPS
          N.....Y....E...EASCPVMSA.P.Y.Y..A...NIKK.IK....K...Y.LMT.V..Q.DD.T.FPS
Retrocopy NSVDFFYQNTKELSSEASCPVMSAYPKYKYYLAGDINIKKLIKYTVLKCVHY>LMTLVLNQPDD-THFPS

Parental  KIGVP-FPKNFMSVAKTILKRLFRVYAHIYHQHFDSVMQLQ-EEAHLNTSF-KHFIFFVQEFNLIDRREL
          KI.VP.FP.........ILK.LF.VY..IY.QH.DSVMQ...EEAHL.T...KH.IFFV.E.NLID..EL
Retrocopy KITVP>FPISLQQ-SLFILKCLFTVYTCIYQQHIDSVMQKE<EEAHLDTFL<KHLIFFV*ELNLIDKDEL

Parental  APLQELIEKLGSK
          .PL.ELIEKLG.K
Retrocopy TPL*ELIEKLGTK

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	7.62 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	3.97 RPM
SRP007412_cerebellum	0.00 RPM	14.53 RPM
SRP007412_heart	0.00 RPM	8.24 RPM
SRP007412_kidney	0.00 RPM	25.00 RPM
SRP007412_liver	0.00 RPM	5.62 RPM
SRP007412_testis	0.11 RPM	16.85 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1299 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1299 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1299 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1223
Pan troglodytes	retro_ptro_837
Gorilla gorilla	retro_ggor_954
Pongo abelii	retro_pabe_1017

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017359	1 retrocopy	retro_amel_1889,
Canis familiaris	ENSCAFG00000008735	1 retrocopy	retro_cfam_2054,
Choloepus hoffmanni	ENSCHOG00000007277	1 retrocopy	retro_chof_502,
Dasypus novemcinctus	ENSDNOG00000012838	3 retrocopies	retro_dnov_1948, retro_dnov_2226, retro_dnov_337,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425,
Homo sapiens	ENSG00000114978	2 retrocopies	retro_hsap_1223, retro_hsap_4670,
Gorilla gorilla	ENSGGOG00000010015	1 retrocopy	retro_ggor_954,
Loxodonta africana	ENSLAFG00000014338	2 retrocopies	retro_lafr_223, retro_lafr_285,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299 , retro_mmul_297,
Mustela putorius furo	ENSMPUG00000007824	2 retrocopies	retro_mputfur_754, retro_mputfur_770,
Nomascus leucogenys	ENSNLEG00000000321	2 retrocopies	retro_nleu_2161, retro_nleu_694,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688,
Pongo abelii	ENSPPYG00000012284	2 retrocopies	retro_pabe_1017, retro_pabe_3629,
Pan troglodytes	ENSPTRG00000012079	2 retrocopies	retro_ptro_3103, retro_ptro_837,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545,