RetrogeneDB ID: retro_mmul_347

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 2:45667155..45667809(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000011613
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: COQ7
• Ensembl ID: ENSMMUG00000006604
• Aliases: None
• Description: None

Sequence

>retro_mmul_347
ATGAGTTGCGCCAGGGCGGCGGCGGCTCCCTGCCTGTGGCGGCTGCGCACGGGCGCCCGGCGGTCGCTCTCAGCTTATGG
AAGAAGGATCATTGTCAGATTTCGCAGTTCAGGAATGACCTTAGACAATATCAATTGGGCAGTTGTGGATCGAATAATCT
GGGTGGATCATGCAGGCGAATATGGAGCAAACCGCATCTATGCCGGGCAGATGGCCGTCCTGGGTCGGACAAGCGTCGGG
CCAGTCATTCAGAAAATGTGGGATCAAGAAAAGGACCATTTGAAAAAGTTCAGTGAGTTGATGGTTACGTTCAGGGTCCG
GCCGACAGTTCTGATGCCCTTTTGGAATGTGCTGGGGTTTGCACTGGGGGCAGGGACCGCCTTGCTCGGGAAGGAAGGTG
CAATGGCCTGCACCGTGGTGGTGGAAGAGAGCATAGCACATCACTACAACAACCAGATCAGGAAGCTGATGGAGGAGGAC
CCTGAAAAACACGAGGAACTTCTTCAGGTGATAAAGAAATTTCGGGATGAAGAGCTTGAGCACCATGACACAGGCCTTGA
ACATGATGCCGAATTGGCTCCAGCCTATGCCGTCCTGAAGAGCGTTATCCAAGCTGGATGCAAAGTGGCGATATATTTAT
CAGAAAGATTGTAA

Alignment

ORF - retro_mmul_347 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.77 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSCAGAAAAPCLWRLRPGARRSLSAYGRRIIVRFRSSGMTLDNINRAVVDRIIRVDHAGEYGANRIYAGQ
          MSCA.AAAAPCLWRLR.GARRSLSAYGRRIIVRFRSSGMTLDNIN.AVVDRII.VDHAGEYGANRIYAGQ
Retrocopy MSCARAAAAPCLWRLRTGARRSLSAYGRRIIVRFRSSGMTLDNINWAVVDRIIWVDHAGEYGANRIYAGQ

Parental  MAVLGRTSVGPVIQKMWDQEKDHLKKFSELMVTFRVRPTVLMPFWNVLGFALGAGTALLGKEGAMACTVA
          MAVLGRTSVGPVIQKMWDQEKDHLKKFSELMVTFRVRPTVLMPFWNVLGFALGAGTALLGKEGAMACTV.
Retrocopy MAVLGRTSVGPVIQKMWDQEKDHLKKFSELMVTFRVRPTVLMPFWNVLGFALGAGTALLGKEGAMACTVV

Parental  VEESIAHHYNNQIRKLMEEDPEKYKELLQVIKKFRDEELEHHDTGLEHDAELAPAYAVLKSVIQAGCKVA
          VEESIAHHYNNQIRKLMEEDPEK..ELLQVIKKFRDEELEHHDTGLEHDAELAPAYAVLKSVIQAGCKVA
Retrocopy VEESIAHHYNNQIRKLMEEDPEKHEELLQVIKKFRDEELEHHDTGLEHDAELAPAYAVLKSVIQAGCKVA

Parental  IYLSERL
          IYLSERL
Retrocopy IYLSERL

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	2.13 RPM
SRP007412_brain_prefrontal_cortex	0.16 RPM	2.62 RPM
SRP007412_cerebellum	0.06 RPM	0.90 RPM
SRP007412_heart	0.00 RPM	4.89 RPM
SRP007412_kidney	0.00 RPM	2.70 RPM
SRP007412_liver	0.24 RPM	2.14 RPM
SRP007412_testis	0.04 RPM	4.67 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_347 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_347 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_347 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000406	4 retrocopies	retro_chof_1015, retro_chof_1791, retro_chof_291, retro_chof_569,
Echinops telfairi	ENSETEG00000016203	2 retrocopies	retro_etel_1424, retro_etel_1605,
Macaca mulatta	ENSMMUG00000006604	1 retrocopy	retro_mmul_347 ,
Sarcophilus harrisii	ENSSHAG00000018111	1 retrocopy	retro_shar_273,
Ictidomys tridecemlineatus	ENSSTOG00000003901	1 retrocopy	retro_itri_642,
Tupaia belangeri	ENSTBEG00000001643	1 retrocopy	retro_tbel_1265,