RetrogeneDB ID: retro_mmul_958

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 12:66019200..66019689(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DAZAP2
• Ensembl ID: ENSMMUG00000001884
• Aliases: None
• Description: None

Sequence

>retro_mmul_958
GGTCAATATCTGACACAGCCAACCTATCCTGTGCAGCCTCCTGGGAGTCCAGTATACCCTCAGACCTTGCATCTTTTTCA
GGCTCCACCCTATACTGATGCTTCACCTGCCTACTCAGAGCTCTGTCGTCCAAGCTTTGTGTACCCAGGGGCTGCCACAG
TCCCCACCACATCGGCCGCATTTTCTGGAGCCTCTCTGTATCTTCCCATGGCCCAGTCTGTGGCTGTTGGGTCTTTAGGT
TCCACAATCCCCATGGCTTATTATCCACTTGTTCCCATCTATCCACCTGACTCCACAGTGCTGGTGGAAGGAGGGTATGA
TGCAGGTGCCAGATTTGGAGCTGGGGCTACTGCTGGCAACATTCCTCCTCCACCTCCTGGATGCCCTCCCAATGCTGCTC
AGCTTGCAGTCATGCAGGGAGCCAACGTCCTCGTAACTCAGTGAAAGGGGAATTTCATGGGTGATTCAGATGGTGGCTAC
ACCATCTGG

Alignment

ORF - retro_mmul_958 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.85 %
• Parental protein coverage: 98.2 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GQYPTQPTYPVQPPGNPVYPQTLHLPQAPPYTDAPPAYSELYRPSFVHPGAATVPTMSAAFPGASLYLPM
          GQY.TQPTYPVQPPG.PVYPQTLHL.QAPPYTDA.PAYSEL.RPSFV.PGAATVPT.SAAF.GASLYLPM
Retrocopy GQYLTQPTYPVQPPGSPVYPQTLHLFQAPPYTDASPAYSELCRPSFVYPGAATVPTTSAAFSGASLYLPM

Parental  AQSVAVGPLGSTIPMAYYPVSPIYPPGSTVLVEGGYDAGARFGAGATAGNIPPPPPGCPPNAAQLAVMQG
          AQSVAVG.LGSTIPMAYYP..PIYPP.STVLVEGGYDAGARFGAGATAGNIPPPPPGCPPNAAQLAVMQG
Retrocopy AQSVAVGSLGSTIPMAYYPLVPIYPPDSTVLVEGGYDAGARFGAGATAGNIPPPPPGCPPNAAQLAVMQG

Parental  ANVLVTQRKGNFFMGGSDGGYTIW
          ANVLVTQ.KGN.FMG.SDGGYTIW
Retrocopy ANVLVTQ*KGN-FMGDSDGGYTIW

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	0.45 RPM	35.86 RPM
SRP007412_brain_prefrontal_cortex	1.19 RPM	62.19 RPM
SRP007412_cerebellum	0.65 RPM	32.74 RPM
SRP007412_heart	0.06 RPM	26.26 RPM
SRP007412_kidney	0.35 RPM	78.99 RPM
SRP007412_liver	0.40 RPM	50.31 RPM
SRP007412_testis	0.11 RPM	16.13 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_958 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_958 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_958 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2370
Gorilla gorilla	retro_ggor_1800
Pongo abelii	retro_pabe_2140

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017661	2 retrocopies	retro_cjac_636, retro_cjac_793,
Homo sapiens	ENSG00000183283	1 retrocopy	retro_hsap_2370,
Gorilla gorilla	ENSGGOG00000026861	1 retrocopy	retro_ggor_1800,
Myotis lucifugus	ENSMLUG00000009959	1 retrocopy	retro_mluc_351,
Macaca mulatta	ENSMMUG00000001884	1 retrocopy	retro_mmul_958 ,
Nomascus leucogenys	ENSNLEG00000017776	1 retrocopy	retro_nleu_360,
Otolemur garnettii	ENSOGAG00000007977	3 retrocopies	retro_ogar_2109, retro_ogar_2139, retro_ogar_3130,
Pongo abelii	ENSPPYG00000004524	1 retrocopy	retro_pabe_2140,