RetrogeneDB ID: retro_mmul_575

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:203022171..203022939(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CEP57
• Ensembl ID: ENSMMUG00000014796
• Aliases: None
• Description: None

Sequence

>retro_mmul_575
GCGTTGGTCTCTGCTGCTTCTGGTTCTCAGTTCTCGAACATCTTAGCTGAATCATCAAGGCCTCAAGGAAGTACAGTTCA
GCATTCTTCATCTCCATATGTAGTATATCCATCTGATAAGCCTTTCCTTAATAGTCATCTATGACACTCCCCAAATAAGA
CTATACTTGCCTATCTAGAAAGCAACAGCAGAGATATATTTTCTGCTCTTAAGAATCTTCAAAGTAAGATTTGATGCTTG
GAACTTAAAAGGATTCCAGAAGAAGAAAGTATAAAAACCTTGTCTAGAGAAACAGTTGAATCCAAGAAAGTACTGGATGA
AGATATACAGGAAAGGGAGAATTCAAAGAATGAAGAATCAAAGCACAATCAAGAATTGATATCTCAGTTGATAACTGCAG
AAAATAAATGTACTCTTTTAGAAAAACAATTGGAATACATGTGAAATATGATAAAGCATGCAGAAATGGAGAAGACATCT
GTCTTAGAGTAACAGGTTTCCCTAGAAAGAGAATGGGAACACAATCAAAGACATGTTTGCAGCCAACTTGAAAAATTGGA
TCTTTTTGAATGGGAGTATAACAAACTTTCCACAGTGCAGGCCCTTGCAGAAAGAAAAGTGTAAGAGTTGGAAGCAAAAC
TCTCTGAAGAAGAACAGGAAAGGAAACACGTACAAACTAAGGCAGCTAAGTTACAGACTGGTCTAGAAACAAATAGAGTT
ATCATTGAAGATAAGGCAAGTCCACATTTTCCCAGTGCAAGAAGAATT

Alignment

ORF - retro_mmul_575 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.12 %
• Parental protein coverage: 54.12 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASVSAASGSQLSNILAEPSRSNGSMVRHSSSPYVVYPSDKPFLNSDLRRSPSKPTLAYPESNSRAIFSAL
          A.VSAASGSQ.SNILAE.SR..GS.V.HSSSPYVVYPSDKPFLNS.L..SP.K..LAY.ESNSR.IFSAL
Retrocopy ALVSAASGSQFSNILAESSRPQGSTVQHSSSPYVVYPSDKPFLNSHL*HSPNKTILAYLESNSRDIFSAL

Parental  KNLQDKIRRLELERIQAEESVKTLSRETIEYKKVLDEQIQERENSKNEESKHNQELTSQLLAAENKCNLL
          KNLQ.KI..LEL.RI..EES.KTLSRET.E.KKVLDE.IQERENSKNEESKHNQEL.SQL..AENKC.LL
Retrocopy KNLQSKI*CLELKRIPEEESIKTLSRETVESKKVLDEDIQERENSKNEESKHNQELISQLITAENKCTLL

Parental  EKQLEYMRNMIKHAEMERTSVLEKQVSLERERQHDLTHVQSQLEKLDLLEQEYNKLTTMQALAEKKMQEL
          EKQLEYM.NMIKHAEME.TSVLE.QVSLERE..H...HV.SQLEKLDL.E.EYNKL.T.QALAE.K..EL
Retrocopy EKQLEYM*NMIKHAEMEKTSVLE*QVSLEREWEHNQRHVCSQLEKLDLFEWEYNKLSTVQALAERKV*EL

Parental  EAKLHEEEQERKRMQAKAAELQTGLETNRLTFEDKATPRVPSARRI
          EAKL.EEEQERK..Q.KAA.LQTGLETNR...EDKA.P..PSARRI
Retrocopy EAKLSEEEQERKHVQTKAAKLQTGLETNRVIIEDKASPHFPSARRI

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	22.41 RPM
SRP007412_brain_prefrontal_cortex	0.16 RPM	11.26 RPM
SRP007412_cerebellum	0.06 RPM	24.99 RPM
SRP007412_heart	0.06 RPM	8.30 RPM
SRP007412_kidney	0.00 RPM	14.32 RPM
SRP007412_liver	0.00 RPM	4.43 RPM
SRP007412_testis	0.00 RPM	83.45 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_575 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_575 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_575 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000996	1 retrocopy	retro_etel_1557,
Homo sapiens	ENSG00000166037	1 retrocopy	retro_hsap_474,
Macaca mulatta	ENSMMUG00000014796	1 retrocopy	retro_mmul_575 ,
Nomascus leucogenys	ENSNLEG00000007130	1 retrocopy	retro_nleu_888,
Tupaia belangeri	ENSTBEG00000003141	1 retrocopy	retro_tbel_2135,