RetrogeneDB ID: retro_mmul_138

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 9:73470437..73470842(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000030530
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MMU.628
• Ensembl ID: ENSMMUG00000004682
• Aliases: None
• Description: zinc finger protein 593 [Source:RefSeq peptide;Acc:NP_001247971]

Sequence

>retro_mmul_138
GTGGGTCGCTCCCGCCGGACAGGTGCGCACCGAGCGCACTCTCTAGCCCGGCAGATGAAGGTGAAGCGGCGGCGGCCGGA
CCTGGATGAGATTCACCGCGAGCTGCGGCCTCTGGGACCCGCACGGCCCCAGCCTGACCCAGACGCCGAGCCTGACCTCG
ACCTGCCAGGGGGCGGCCTGCACCGCTGTCTGGCCTGCGTGAGGTACTTCATCGATTCCGCCAATCTGAAGACCCACTTC
CGATCCAAAGACCACAAGAAAAGGCGGAAGCAGCTGAGCGTCAAGCCCTACAGTCAGGAAGAGGCGGAGAGGGCAGCGGG
TATGGGATCCTATGTGCCTCCCAGGCGGCTAGCAGTGCCCACAGAAGTGTCCACTGAGGTCCCTGAGATGGACACCTCTA
CTTGA

Alignment

ORF - retro_mmul_138 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.52 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGRSRRTGAHRAHSLARQMKAKRRRPDLDEIHRELRPLGPARPQPDPDAEPDPDLPGGGLHRCLACARYF
          .GRSRRTGAHRAHSLARQMK.KRRRPDLDEIHRELRPLGPARPQPDPDAEPD.DLPGGGLHRCLAC.RYF
Retrocopy VGRSRRTGAHRAHSLARQMKVKRRRPDLDEIHRELRPLGPARPQPDPDAEPDLDLPGGGLHRCLACVRYF

Parental  IDSANLKTHFRSKDHKKRLKQLSVEPYSQEEAERAAGMGSYVPPRRLAVPTEVSTEVPEMDTST
          IDSANLKTHFRSKDHKKR.KQLSV.PYSQEEAERAAGMGSYVPPRRLAVPTEVSTEVPEMDTST
Retrocopy IDSANLKTHFRSKDHKKRRKQLSVKPYSQEEAERAAGMGSYVPPRRLAVPTEVSTEVPEMDTST

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	2.02 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	8.65 RPM
SRP007412_cerebellum	0.00 RPM	1.68 RPM
SRP007412_heart	0.00 RPM	1.83 RPM
SRP007412_kidney	0.00 RPM	2.70 RPM
SRP007412_liver	0.00 RPM	6.61 RPM
SRP007412_testis	0.00 RPM	3.35 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_138 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_138 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_138 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
Myotis lucifugus	ENSMLUG00000010172	1 retrocopy	retro_mluc_2524,
Macaca mulatta	ENSMMUG00000004682	1 retrocopy	retro_mmul_138 ,
Otolemur garnettii	ENSOGAG00000016334	3 retrocopies	retro_ogar_300, retro_ogar_3212, retro_ogar_68,