RetrogeneDB ID: retro_mmul_1116

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 14:90909788..90910267(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDUFB11
• Ensembl ID: ENSMMUG00000017422
• Aliases: None
• Description: None

Sequence

>retro_mmul_1116
GACCCTGCAGGACTATCTGTCATGGCAGCTGGGCTATTAAGTTTGAGCACCCCCGGTCTCTTGGAGGCAGCGGCGACGCA
AAGGCTCCTGGCCAGCCACATCCGTTGGGAATCCAGCTTCTCCAGGACTGTGGTCGCCCATCTGCTGTGGCATGAAAGCA
GCCCCCCGAACTTACCATACACTGGCAGGAGGACCCAGATCCCGAGGACTAAAACTTCTATGAGAAGAACCCAGACTCCC
ATTGTTACGACAAGGACCCCGTTTTGGACATCTGGAACATGCGAGTTGTCTTCTTCTTTGGCGTCTCCATTGTTCTGGTC
CTTGGCAGCACCTTTGTGGTCTATCTGCCTGATTACAGGATGCCAGAGTGGGCCCATCATGGAGCTGAGATGCTTGTGAA
ATACCAAGAGGCCAATGGCCTTCCCATCATGGAATGCAACTGCTTCCACCCCAGCAAAATCCAGCTGCCAGAGGATGAG

Alignment

ORF - retro_mmul_1116 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.91 %
• Parental protein coverage: 73.06 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DPAAPSVMAAGLFGLSARRLLAAAATRGLPAARVRWESSFSRTVVA-PSAVARKRALEPTTQWQEDPEPE
          DPA..SVMAAGL..LS...LL.AAAT..L.A...RWESSFSRTVVA.PSAVA.K...E.T..WQEDP.PE
Retrocopy DPAGLSVMAAGLLSLSTPGLLEAAATQRLLASHIRWESSFSRTVVA<PSAVA*KQPPELTIHWQEDPDPE

Parental  DQNLYEKNPDSHGYDKDPVLDVWNMRVVFFFGVSVVLVLGSTYVAYLPDYRMKEWSRREAERLVKYREAN
          D.N.YEKNPDSH.YDKDPVLD.WNMRVVFFFGVS.VLVLGST.V.YLPDYRM.EW....AE.LVKY.EAN
Retrocopy D*NFYEKNPDSHCYDKDPVLDIWNMRVVFFFGVSIVLVLGSTFVVYLPDYRMPEWAHHGAEMLVKYQEAN

Parental  GLPLIESNYFDPSKIQLPEDE
          GLP..E.N.F.PSKIQLPEDE
Retrocopy GLPIMECNCFHPSKIQLPEDE

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	11.77 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	31.41 RPM
SRP007412_cerebellum	0.00 RPM	10.91 RPM
SRP007412_heart	0.00 RPM	20.20 RPM
SRP007412_kidney	0.00 RPM	22.30 RPM
SRP007412_liver	0.00 RPM	20.58 RPM
SRP007412_testis	0.00 RPM	2.75 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1116 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1116 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1116 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_912
Pan troglodytes	retro_ptro_633
Pongo abelii	retro_pabe_788

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000147123	1 retrocopy	retro_hsap_912,
Macaca mulatta	ENSMMUG00000017422	2 retrocopies	retro_mmul_1116 , retro_mmul_830,
Monodelphis domestica	ENSMODG00000018491	1 retrocopy	retro_mdom_1063,
Mus musculus	ENSMUSG00000031059	2 retrocopies	retro_mmus_245, retro_mmus_2602,
Pongo abelii	ENSPPYG00000020284	1 retrocopy	retro_pabe_788,
Pan troglodytes	ENSPTRG00000021836	1 retrocopy	retro_ptro_633,
Rattus norvegicus	ENSRNOG00000008329	1 retrocopy	retro_rnor_151,
Ictidomys tridecemlineatus	ENSSTOG00000026821	1 retrocopy	retro_itri_1084,