RetrogeneDB ID: retro_mmul_1466

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 2:137069189..137069841(+)
• Located in intron of: ENSMMUG00000017509

Retrocopy information

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

Parental gene information

• Parental gene symbol: WSB2
• Ensembl ID: ENSMMUG00000010236
• Aliases: None
• Description: None

Sequence

>retro_mmul_1466
AAACAGATTCAAGTGTTATTGGGCCACCTGCAGTGGGTTTACTGCTGTTCCATCTCCCCAGACTGCAGCATGCTGTGCTC
TGCAGCTGAAGAGAAGTCGGTCTTTCTATGGAGCATGAGGTCCTACACATTAATTCGGAAGCTAGAGGGCCATCAAAGCA
GTGTTGTCTCTTGTGACTTCTCCCCCAACTCTGCCCTGCTTGTCACGGCTTCTTACGATACCAATGTGATTATGTGGGAC
CCCTACACCAGAGAAAGGCTGAGGTCACTCCACCACACCCAGGTTGACCCCGCCATGGATGACAGTGATGTCCACGTTAG
CTCACTGAGATCTGTGTGCTTCTCTCCAGAAGGCTTGTACCTTGCCACGGTGGCAGATGACAGACTCCTCAGGATCTGGG
CCCTGGAACTGAAAACTCCCATTGCATTTGCTCCTGTGACCAATGGTCTTTGCTGCTGCACATTTTTTCCACATGGTGGA
GTCATTGCCACAGAGATAAGAGATGGCCACGTCCAGTTCTGGACAGCTCCTAGGGTGCTGTCCTCACTGAAGCACTTATG
CCGGAAAGCCCTTCGAAGTTTCCTAACAACTTACCAAGTCCTAGCACTGCCAATCCCAAGAAAATGAAAGCGTCCTCACA
TACAGGACTTTT

Alignment

ORF - retro_mmul_1466 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.09 %
• Parental protein coverage: 55.22 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KQIQVLSGHLQWVYCCSISPDCSMLCSAAGEKSVFLWSMRSYTLIRKLEGHQSSVVSCDFSPDSALLVTA
          KQIQVL.GHLQWVYCCSISPDCSMLCSAA.EKSVFLWSMRSYTLIRKLEGHQSSVVSCDFSP.SALLVTA
Retrocopy KQIQVLLGHLQWVYCCSISPDCSMLCSAAEEKSVFLWSMRSYTLIRKLEGHQSSVVSCDFSPNSALLVTA

Parental  SYDTNVIMWDPYTGERLRSLHHTQVDPAMDDSDVHISSLRSVCFSPEGLYLATVADDRLLRIWALELKTP
          SYDTNVIMWDPYT.ERLRSLHHTQVDPAMDDSDVH.SSLRSVCFSPEGLYLATVADDRLLRIWALELKTP
Retrocopy SYDTNVIMWDPYTRERLRSLHHTQVDPAMDDSDVHVSSLRSVCFSPEGLYLATVADDRLLRIWALELKTP

Parental  IAFAPMTNGL-CCTFFPHGGVIATGTRDGHVQFWTAPRVLSSLKHLCRKALRSFLTTYQVLALPI-PKKM
          IAFAP.TNGL.CCTFFPHGGVIAT..RDGHVQFWTAPRVLSSLKHLCRKALRSFLTTYQVLALPI.PKKM
Retrocopy IAFAPVTNGLCCCTFFPHGGVIATEIRDGHVQFWTAPRVLSSLKHLCRKALRSFLTTYQVLALPI<PKKM

Parental  K-EFLTYRTF
          K...LTYRTF
Retrocopy K<SVLTYRTF

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	9.41 RPM	172.00 RPM
SRP007412_brain_prefrontal_cortex	10.79 RPM	200.39 RPM
SRP007412_cerebellum	4.13 RPM	89.24 RPM
SRP007412_heart	2.00 RPM	38.04 RPM
SRP007412_kidney	1.88 RPM	47.42 RPM
SRP007412_liver	1.23 RPM	24.15 RPM
SRP007412_testis	1.58 RPM	22.88 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1466 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1466 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1466 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003651	1 retrocopy	retro_chof_870,
Echinops telfairi	ENSETEG00000018534	2 retrocopies	retro_etel_1750, retro_etel_2174,
Microcebus murinus	ENSMICG00000005913	1 retrocopy	retro_mmur_1573,
Myotis lucifugus	ENSMLUG00000002114	1 retrocopy	retro_mluc_2097,
Macaca mulatta	ENSMMUG00000010236	1 retrocopy	retro_mmul_1466 ,
Mus musculus	ENSMUSG00000029364	1 retrocopy	retro_mmus_810,