RetrogeneDB ID: retro_mmul_2276

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 7:168912985..168913697(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ELK1
• Ensembl ID: ENSMMUG00000019420
• Aliases: None
• Description: ETS domain-containing protein Elk-1 [Source:RefSeq peptide;Acc:NP_001244117]

Sequence

>retro_mmul_2276
ATGGACCCATCTGTGACGCTGTGGCAGTTTCTGCTACATCTGCCGAGAGAGCAAGGCAATGGCCACATCTCCTGGACTTC
ACGGGATGGTGGTGAATTCAAGCTGGTGGATGCAGAGGAGGCGGCCCGGCTGTAGGGGCTACGCAAGAACAAGAGCACCA
TGAATTACGACAAGCTCGCCGGGCCCTGCCGTACTACCATCACAGGAACATCGTCCGCAAGGAGAGCGGCCAGAAGCTCG
TCTACAAGTCAGTGTCCTACCTGAGGTCGCAGGGTGCTCCACCGAGGACTGCCCGCCCCAACCAGCCGTGTCTGTTACCT
CCGCCATGGCAAATGTGGCCCCTGCTGCCGTACCTGCCGCCCCAGGGAACACTGTCTCAGGAAAGCCGGGCACACCCAAG
GCTGCAGGAAGGGCAGGCCCTGGCGGTTTGGCGCGCAGCAGCCGGAACAAGTACCTGCGCTCGGGCCTCTCTTCCACCCG
CACCATCCAGTCTCTGCAGCCACAGCCGCCCCCTCGGCCTCCGCCTGCTGTGCCGCTCCCCAGCGCCGCTCCCGCAGGAG
CAGCAGCGCCCCCGGGGAGCAGGAGCCCCAGTCCCAGCCGCCTGCAGGCCCGCCTGGAGGCTGAGGAGGCCCGCTTGCCT
CTGCAGGTCATCCTGACCCGGCCCGAGGCCCCAAACCTGAAATCGGAAGAGCTGAAAGTGGAGCTGGGTTTG

Alignment

ORF - retro_mmul_2276 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.23 %
• Parental protein coverage: 56.07 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MDPSVTLWQFLLQLLREQGNGHIISWTSRDGGEFKLVDAEEVARLWGLRKNKTNMNYDKLS-RALRYYYD
          MDPSVTLWQFLL.L.REQGNGHI.SWTSRDGGEFKLVDAEE.ARL.GLRKNK..MNYDKL..RAL.YY..
Retrocopy MDPSVTLWQFLLHLPREQGNGHI-SWTSRDGGEFKLVDAEEAARL*GLRKNKSTMNYDKLA<RALPYYHH

Parental  KNIIRKVSGQKFVYKFVSY-PEVAGCSTEDCPPQPEVSVTSAMPNVAPAAVHATPGDTASGKPGTPKGAG
          .NI.RK.SGQK.VYK.VSY.PEVAGCSTEDCPPQP.VSVTSAM.NVAPAAV.A.PG.T.SGKPGTPK.AG
Retrocopy RNIVRKESGQKLVYKSVSY<PEVAGCSTEDCPPQPAVSVTSAMANVAPAAVPAAPGNTVSGKPGTPKAAG

Parental  MAGPGGLARSSRNEYMRSGLYSTFTIQSLQPQPPPHPRPAVVLPNAAPAGAAAPPSGSRSTSPSPLEACL
          .AGPGGLARSSRN.Y.RSGL.ST.TIQSLQPQPPP.P.PAV.LP.AAPAGAAAPP.GSRS.SPS.L.A.L
Retrocopy RAGPGGLARSSRNKYLRSGLSSTRTIQSLQPQPPPRPPPAVPLPSAAPAGAAAPP-GSRSPSPSRLQARL

Parental  EAEEAGLPLQVILTPPEAPNLKSEELNVEPGL
          EAEEA.LPLQVILT.PEAPNLKSEEL.VE.GL
Retrocopy EAEEARLPLQVILTRPEAPNLKSEELKVELGL

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	15.46 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	55.85 RPM
SRP007412_cerebellum	0.00 RPM	15.56 RPM
SRP007412_heart	0.06 RPM	5.12 RPM
SRP007412_kidney	0.12 RPM	4.69 RPM
SRP007412_liver	0.00 RPM	10.17 RPM
SRP007412_testis	0.26 RPM	17.49 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2276 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2276 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2276 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000126767	2 retrocopies	retro_hsap_1465, retro_hsap_1466,
Gorilla gorilla	ENSGGOG00000008714	1 retrocopy	retro_ggor_1126,
Macaca mulatta	ENSMMUG00000019420	2 retrocopies	retro_mmul_1559, retro_mmul_2276 ,