RetrogeneDB ID: retro_mmul_2317

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 8:6534922..6535366(-)
• Located in intron of: ENSMMUG00000010137

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.2826
• Ensembl ID: ENSMMUG00000009140
• Aliases: None
• Description: adenylate kinase isoenzyme 6 [Source:RefSeq peptide;Acc:NP_001247692]

Sequence

>retro_mmul_2317
TCAGAATCAGGATTGAAATACATCAATGTGGATGATTTAGCTCGAGAAGAGCAATTGTACGATGGCTATGATGAAGAGTA
TGATTGTCCCGTTTCAGATGATGACAGAGTAGCTGATGAGTGAGATAACCAAATGAGAGAATGTGGAGTTATCGTTGATT
ACCACGGTTGTGATATCTTCCCTGAATGCTGGTTTCATACAGTTTTTGTGCTGAGAACAGATGCCAACGTACTGTACGAA
AGACTTGAAACGAAGGGTTATAATGAGAAGAAACTGAAAGACAATATTCAGTGTGAGATTTTCCAAGTTCTTTATGAAGA
AGCCACGGCATCTTACAAGGAAGAAGTCGTGCATCAGCTGCCCAGCAGTAAACCAGAAGAGCTAGAAAATAATGTAGATC
AGATCTGGAAATGGATTGAGCAGCAGATCAAAGATCATAATTCT

Alignment

ORF - retro_mmul_2317 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.84 %
• Parental protein coverage: 86.05 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SKSGLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVDELDNQMREGGVIVDYHGCDFFPERWFHIVFV
          S.SGLKYINV.DLAREEQLYDGYDEEYDCP..D.DRV.DE.DNQMRE.GVIVDYHGCD.FPE.WFH.VFV
Retrocopy SESGLKYINVDDLAREEQLYDGYDEEYDCPVSDDDRVADE*DNQMRECGVIVDYHGCDIFPECWFHTVFV

Parental  LRTDTNVLYERLETRGYNEKKLTDNIQCEIFQVLYEEATASYKEEIVHQLPSNKPEELENNVDQILKWIE
          LRTD.NVLYERLET.GYNEKKL.DNIQCEIFQVLYEEATASYKEE.VHQLPS.KPEELENNVDQI.KWIE
Retrocopy LRTDANVLYERLETKGYNEKKLKDNIQCEIFQVLYEEATASYKEEVVHQLPSSKPEELENNVDQIWKWIE

Parental  QWIKDHNS
          Q.IKDHNS
Retrocopy QQIKDHNS

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	0.11 RPM	42.69 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	36.81 RPM
SRP007412_cerebellum	0.13 RPM	35.52 RPM
SRP007412_heart	0.00 RPM	21.43 RPM
SRP007412_kidney	0.12 RPM	32.28 RPM
SRP007412_liver	0.00 RPM	21.89 RPM
SRP007412_testis	0.00 RPM	145.08 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2317 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2317 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2317 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4016
Pan troglodytes	retro_ptro_2726
Pongo abelii	retro_pabe_3298

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000085231	4 retrocopies	retro_hsap_134, retro_hsap_4016, retro_hsap_4925, retro_hsap_987,
Macaca mulatta	ENSMMUG00000009140	1 retrocopy	retro_mmul_2317 ,
Macaca mulatta	ENSMMUG00000012875	1 retrocopy	retro_mmul_1480,