RetrogeneDB ID: retro_mmul_602

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 10:39235595..39236285(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EXOSC2
• Ensembl ID: ENSMMUG00000012498
• Aliases: None
• Description: None

Sequence

>retro_mmul_602
GATAAGTTGATCTGTGTGAAAGCTTTGAAACCCAGATACATTGGTGAAGCAGGAGACATTGTAGTGGGAAGAATCACAGA
GGTTCAACAGAAGAGGTGGAAGGTGGAGACCAACTCCGGGCTGGATTCGGTCCTGCTGTTCTCGCCCATGAACCTTCCTG
GAGGAGAGCTGAAGAGAAGATCTACAGAAGATGAGCTTGCAATGACAGGTTTCTTACAGGAAGGGGACCTTATCAGTGCT
GAGGTCCAGGCAGTGTTCTCTGACGGAGCTGTCTCTCTGCACACGAGGAGCCTGAAATATGGAAAACTAGGTCAGGGGGT
TTTGGTCCAGGTGTCCCCCTCCCTGGTGAAACGGCAGAAGATCCACTTTCATGATTTGCCATGTGGTGCCTCAGTGATTC
TTGGTAACAACGGCTTCATCTAGATTTACCCAACACCTGAGCACAAAGAAGAGGAAGCAGGGGGCTTCACTGCAAACCTG
GAGCCTGTCTCTCTTGCTGATGGAGAGGTGATATCCTGGCTTCGGAACTGCAACATCTCGCTGGTAACTCAGAGGACGAT
GCTGTATGATACCAGCATCCTGTACTGCTATGAAGCATCCCTTCCACGTCAGATCAAAGACATCTTAAAGCCAGAAATAA
TGGAGGAGATTGTGATGGAAACACGTCAGAGGCTTTTAGAACAGGAGGGA

Alignment

ORF - retro_mmul_602 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.61 %
• Parental protein coverage: 78.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NKLICVKALKTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSAEDELAMRG
          .KLICVKALK.RYIGE.GDIVVGRITEVQQKRWKVETNS.LDSVLL.S.MNLPGGEL.RRS.EDELAM.G
Retrocopy DKLICVKALKPRYIGEAGDIVVGRITEVQQKRWKVETNSGLDSVLLFSPMNLPGGELKRRSTEDELAMTG

Parental  FLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKLGQGVLVQVSPSLVKRQKTHFHDLPCGASVILGNNGFI
          FLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKLGQGVLVQVSPSLVKRQK.HFHDLPCGASVILGNNGFI
Retrocopy FLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKLGQGVLVQVSPSLVKRQKIHFHDLPCGASVILGNNGFI

Parental  WIYPTPEHKEEEAGGFIANLEPVSLADREVISRLRNCVISLVTQRMMLYDTSILYCYEASLPHQIKDILK
          .IYPTPEHKEEEAGGF.ANLEPVSLAD.EVIS.LRNC.ISLVTQR.MLYDTSILYCYEASLP.QIKDILK
Retrocopy *IYPTPEHKEEEAGGFTANLEPVSLADGEVISWLRNCNISLVTQRTMLYDTSILYCYEASLPRQIKDILK

Parental  PEIMEEIVMETRQRLLEQEG
          PEIMEEIVMETRQRLLEQEG
Retrocopy PEIMEEIVMETRQRLLEQEG

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	12.44 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	10.47 RPM
SRP007412_cerebellum	0.13 RPM	17.37 RPM
SRP007412_heart	0.06 RPM	7.48 RPM
SRP007412_kidney	0.12 RPM	8.57 RPM
SRP007412_liver	0.00 RPM	8.35 RPM
SRP007412_testis	0.00 RPM	5.58 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_602 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_602 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_602 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000008776	1 retrocopy	retro_mluc_2254,
Macaca mulatta	ENSMMUG00000012498	1 retrocopy	retro_mmul_602 ,
Rattus norvegicus	ENSRNOG00000009245	1 retrocopy	retro_rnor_2295,