RetrogeneDB ID: retro_mmul_830

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:96324153..96324810(+)
• Located in intron of: ENSMMUG00000018901

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_830
ATGGTTGGCCCCACGAAGCCACGACAACTGGAGGCAAAGAGGGTTGCTCAACGCCCCGCCTCACTGGAAAACAAAATCAG
ATCTGGGACCTATATAGCGTGGCGGAGGCGGAGCGATAATTGTCGCGCTCTCATCCACTGCAGCTGCGCACAGTCGCATT
TCCGTCCCCGCCCCTCAGATCCTGCAGCACCATCTGTCATGGCGGCTGGGCTGTTTGGTTTGAGCGCTCGCCGTCTTTTG
GCGGCAGCAGCAACGCGAGGGCTCCCGGCCACCCGCGTCCGCTGGGAATCTAGCTTCTCCAGGACTGTGGTCGCCCCGTC
CTCTGTGGCGAGAGAGCGGGCCCCGGAACCGACCACACAGTGGCAAGAGGACCCAGAACCCGAAGACCAAAACTTGTATG
AGAAGAACCCAGACTTCCATGGTTATGACAAGGACCCCGTTTTAGACGTCTGGAACATGCGAGTTGTCTTCTTCTTTGGC
GTCTCCGTCGTCCTGGTCCTTGGCAGCACCTATGTGGCCTATCTGCCCAACTACAGGATGAAAGACTGGTCCCGCCGCGA
AGCTGAGAGACTTGTGAAATACCGAGAGGCCAATGGCCTTCCCCTCATAGAATCCAACTACTTCGACCCCAGCAAGATCC
AGCTGCCAGAGGATGAG

Alignment

ORF - retro_mmul_830 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.35 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVGPTKPRQLEAKRVAQRPASLENKIRSGTYIAWRRRSDNCRALTHCSCAQSHFRPRPSDPAAPSVMAAG
          MVGPTKPRQLEAKRVAQRPASLENKIRSGTYIAWRRRSDNCRAL.HCSCAQSHFRPRPSDPAAPSVMAAG
Retrocopy MVGPTKPRQLEAKRVAQRPASLENKIRSGTYIAWRRRSDNCRALIHCSCAQSHFRPRPSDPAAPSVMAAG

Parental  LFGLSARRLLAAAATRGLPAARVRWESSFSRTVVAPSAVARKRALEPTTQWQEDPEPEDQNLYEKNPDSH
          LFGLSARRLLAAAATRGLPA.RVRWESSFSRTVVAPS.VAR.RA.EPTTQWQEDPEPEDQNLYEKNPD.H
Retrocopy LFGLSARRLLAAAATRGLPATRVRWESSFSRTVVAPSSVARERAPEPTTQWQEDPEPEDQNLYEKNPDFH

Parental  GYDKDPVLDVWNMRVVFFFGVSVVLVLGSTYVAYLPDYRMKEWSRREAERLVKYREANGLPLIESNYFDP
          GYDKDPVLDVWNMRVVFFFGVSVVLVLGSTYVAYLP.YRMK.WSRREAERLVKYREANGLPLIESNYFDP
Retrocopy GYDKDPVLDVWNMRVVFFFGVSVVLVLGSTYVAYLPNYRMKDWSRREAERLVKYREANGLPLIESNYFDP

Parental  SKIQLPEDE
          SKIQLPEDE
Retrocopy SKIQLPEDE

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	5.60 RPM	11.77 RPM
SRP007412_brain_prefrontal_cortex	1.51 RPM	31.41 RPM
SRP007412_cerebellum	4.65 RPM	10.91 RPM
SRP007412_heart	6.07 RPM	20.20 RPM
SRP007412_kidney	7.39 RPM	22.30 RPM
SRP007412_liver	5.07 RPM	20.58 RPM
SRP007412_testis	4.37 RPM	2.75 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_830 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_830 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_830 has 0 orthologous retrocopies within eutheria group .

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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,