RetrogeneDB ID: retro_mmul_382

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:79755702..79756439(+)
• Located in intron of: ENSMMUG00000005994

Retrocopy information

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

Parental gene information

• Parental gene symbol: ADA
• Ensembl ID: ENSMMUG00000010603
• Aliases: None
• Description: None

Sequence

>retro_mmul_382
ATGACCCAGACGCCTGCCTTCGACAAGCCCAAAGTAGAACTGCACGTCCACCTAGACGGAGCCATCAAGCCTGAAACCAT
CTTATACTATGGCAGGAGGAGAGGGATCGCCCTCCCAGCTAACACAGTAGAGGGGCTGCTGAACGTCATTGGCATGGACA
AGCTGCTCACCCTCCTGGACTTCCTGGCCAAGTTTGACTACTACATGCCTGTTATTGCGGGCTGCCGGGAGGCTGTCAAA
AGGATCACCTATGAGTTTATAGAGATGAAGGCCAAAGAAGGTGTGGTGTACGTGGAGGTGCGGTACAGTCCGCACCTGCT
TGCCAACTCCAAAGTGGAGCCAATCCCCTGGAACCAGGCTGAAGGGAACCTCACCCCAGACGAGGTGGTGGTCCTAGTGG
GCCAGGGCCTGCAGGAGCGAGAACGAGACTTCGGGGTCAAGGCCTGGTCCATCCTGTGCTGCATGTGCCACCAGCCCAAC
TGGTCCCCTGACGTGGTGGAGCTGTGTAAGAAGTACCAGCAGTAGACCGTGGTGGCCATTGACCTGGCTGGAGATGAGAC
CATCCCAGGAAGCAGCCTCTTGCCTGGACATGTCCAGGCCTACCAGGAGGCTGTGAAGAGCCGCATTCACTGTACTGTCC
ACGCTGGGGAGGTGGGCTTAGCCGAAGTAGTAAAAGAGGCTGGGACATCAAGACAGAGCGGCTGGGACATGGCTACCACA
CTCTGGAAGACCAGGCA

Alignment

ORF - retro_mmul_382 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.52 %
• Parental protein coverage: 93.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MTQTPAFDKPKVELHVHLDGAIKPETILYYGRRRGIALPANTAEGLLNVIGMDKPLTLPEFLAKFDYYMP
          MTQTPAFDKPKVELHVHLDGAIKPETILYYGRRRGIALPANT.EGLLNVIGMDK.LTL..FLAKFDYYMP
Retrocopy MTQTPAFDKPKVELHVHLDGAIKPETILYYGRRRGIALPANTVEGLLNVIGMDKLLTLLDFLAKFDYYMP

Parental  AIAGCREAIKRIAYEFIEMKAKEGVVYVEVRYSPHLLANSKVEPIPWNQAEGDLTPDEVVALVAQGLQEG
          .IAGCREA.KRI.YEFIEMKAKEGVVYVEVRYSPHLLANSKVEPIPWNQAEG.LTPDEVV.LV.QGLQE.
Retrocopy VIAGCREAVKRITYEFIEMKAKEGVVYVEVRYSPHLLANSKVEPIPWNQAEGNLTPDEVVVLVGQGLQER

Parental  ERDFGVKARSILCCMRHQPNWSLEVVELCKKYQQQTVVAIDLAGDETIPGSSLFPGHVEAYQEAVKSGIH
          ERDFGVKA.SILCCM.HQPNWS..VVELCKKYQQ.TVVAIDLAGDETIPGSSL.PGHV.AYQEAVKS.IH
Retrocopy ERDFGVKAWSILCCMCHQPNWSPDVVELCKKYQQ*TVVAIDLAGDETIPGSSLLPGHVQAYQEAVKSRIH

Parental  RTVHAGEVGSAEVV-KEAVDILKTERLGHGYHTLEDQA
          .TVHAGEVG.AEVV.K...DI.KTERLGHGYHTLEDQA
Retrocopy CTVHAGEVGLAEVV<KRGWDI-KTERLGHGYHTLEDQA

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	3.25 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	7.22 RPM
SRP007412_cerebellum	0.19 RPM	1.74 RPM
SRP007412_heart	0.06 RPM	2.83 RPM
SRP007412_kidney	0.00 RPM	1.41 RPM
SRP007412_liver	0.04 RPM	5.34 RPM
SRP007412_testis	0.00 RPM	0.79 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_382 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_382 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_382 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009498	1 retrocopy	retro_cfam_744,
Macaca mulatta	ENSMMUG00000010603	1 retrocopy	retro_mmul_382 ,
Monodelphis domestica	ENSMODG00000016207	1 retrocopy	retro_mdom_1365,