RetrogeneDB ID: retro_mmul_1430

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 2:46388828..46389355(+)
• Located in intron of: ENSMMUG00000001714

Retrocopy information

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

Parental gene information

• Parental gene symbol: METTL5
• Ensembl ID: ENSMMUG00000023054
• Aliases: None
• Description: None

Sequence

>retro_mmul_1430
CACAGTGAAGCACGTATGCTCTATACAACCCATAACACATGTGATGAGGTAGAAAATAAAGTGGCTGCAGATCTAGGATG
TGGCTGTGGAGTGCTTAGTCTTGGAACTGCAATTTAGGAGCCACGTTGCATGTTGGATTTGACATAGATGCAGATGCACT
AGGAATAATTAATAGGAATGTGGAAGAGTCTGAATTAACATATGTTGGCATGGTTCAATGTGATGTGTGCTCCTTATCTA
ATGGAATGTCCAAGTCATTTAATACAACAATTTTGAATACTCCTTTTGGGACCAAAAATAATAAAGGGACAGATATGGCT
TTTCCAAAGACTACTTTGGAAATGGCAAGAATAGCAGTATATTCTCTACCCAAATCTTCAACTAGAAGACATGTTCAAAA
ACAAGCTACAGAATGCAAAATCAAGACAGATGTTATTGCAGAGCTTCGAGATGATCTGCCAGCATCACACAACTTTCAGG
AAAAGGAATTAATGGACAGTGAAATGGACCTAATTCAGTTTTCTTTT

Alignment

ORF - retro_mmul_1430 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.45 %
• Parental protein coverage: 84.21 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HIAACMLYTIHNTYDDIENKVIADLGCGCGVLSIGTAM-LGAGLCVGFDIDEDALEIFNRNVEEFELTNI
          H..A.MLYT.HNT.D..ENKV.ADLGCGCGVLS.GTA..LGA.L.VGFDID.DAL.I.NRNVEE.ELT..
Retrocopy HSEARMLYTTHNTCDEVENKVAADLGCGCGVLSLGTAI<LGATLHVGFDIDADALGIINRNVEESELTYV

Parental  DMVQCDVCLLSNRMSKSFDTVIMNPPFGTKNNKGTDMAFLKTALEMARTAVYSLHKSSTREHVQKKAAEW
          .MVQCDVC.LSN.MSKSF.T.I.N.PFGTKNNKGTDMAF.KT.LEMAR.AVYSL.KSSTR.HVQK.A.E.
Retrocopy GMVQCDVCSLSNGMSKSFNTTILNTPFGTKNNKGTDMAFPKTTLEMARIAVYSLPKSSTRRHVQKQATEC

Parental  KIKIDIIAELRYDLPASYKFHKKKSVDIEVDLIRFSF
          KIK.D.IAELR.DLPAS..F..K...D.E.DLI.FSF
Retrocopy KIKTDVIAELRDDLPASHNFQEKELMDSEMDLIQFSF

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	3.14 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	2.38 RPM
SRP007412_cerebellum	0.00 RPM	3.68 RPM
SRP007412_heart	0.06 RPM	3.95 RPM
SRP007412_kidney	0.00 RPM	6.22 RPM
SRP007412_liver	0.04 RPM	2.93 RPM
SRP007412_testis	0.00 RPM	4.11 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1430 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1430 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1430 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000003343	1 retrocopy	retro_cpor_373,
Dasypus novemcinctus	ENSDNOG00000013460	2 retrocopies	retro_dnov_1043, retro_dnov_773,
Homo sapiens	ENSG00000138382	2 retrocopies	retro_hsap_1365, retro_hsap_2930,
Gorilla gorilla	ENSGGOG00000022484	2 retrocopies	retro_ggor_1064, retro_ggor_2032,
Loxodonta africana	ENSLAFG00000018044	2 retrocopies	retro_lafr_1213, retro_lafr_864,
Macaca mulatta	ENSMMUG00000023054	3 retrocopies	retro_mmul_1430 , retro_mmul_1953, retro_mmul_2193,
Nomascus leucogenys	ENSNLEG00000005018	4 retrocopies	retro_nleu_1070, retro_nleu_1919, retro_nleu_753, retro_nleu_990,
Oryctolagus cuniculus	ENSOCUG00000010405	1 retrocopy	retro_ocun_1440,
Pongo abelii	ENSPPYG00000012916	2 retrocopies	retro_pabe_2281, retro_pabe_2523,
Pan troglodytes	ENSPTRG00000012621	3 retrocopies	retro_ptro_1822, retro_ptro_2062, retro_ptro_938,