RetrogeneDB ID: retro_mmul_711

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214736862:5883..6867(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DONSON
• Ensembl ID: ENSMMUG00000003701
• Aliases: None
• Description: None

Sequence

>retro_mmul_711
CGACAGAAAAGGGCCCGGAGCCGTGGAGCTGCCGCCTCCCCGCCCCGTGAGCTGCCGGAGCCGGCGGCCCGCCGAGCCGC
CCTGGCGGCGGGGTTGCACCTTCGCCCTTTCCCTGCCGCGGGGGGCAGAGGCGGTGGCGGCGGCCCGGCCGCTGCCCAGA
GGAACCCTTTCGCCCGCCTGGACAACCGACCGCGGGTCGCCGCGGAGCTCCCCGACGGGCCGGCCCGCGAGCAGCCGGAG
GCGCCGGGCCCGTTTTTAGATTCTAATCAAGAAAATGATTTGCTATGGCAAGAGAAGTTCCCTGAAAGAACAACTGTTAC
TGAATTACCCCAGACTTCACATGTATCGTTCTCCGAGTCTGATATTCCATCCTCAGAAAATACTGAGTTACCTGTGGACT
GGAGTATTAAAACCCGACTCCTTTTCATCTCTTCTCAACCCTTTACCTGGGCAGATCATTTGAAAGCACAGGAAGAGGCT
CAAGGTCTTGTCCAGCATTGTAGGGCAACAGAAGTTACTTTGCCTAAAAGTATACAGGATCCCAAACTCTCCACTGAGCT
CCGTTGTGCCTTCTAGCAGAGCCTTATCTATTGGCTCCAGCCTGCTTTGTCTTGGCTACCACTGGACCCTCGTATTGGAG
CTGATAGAAAAATGGCTGGAAAGACAAGTCCTTGGTCAAATGATGCAACCCTGCAGCATGTTTTAATGAGTGACTGATCC
GTGAGCTTTACTTCTCTATATAATTTGCTGAAGACAAAACTTAGCCCCTATTTCTACGTTTGTACCTATCAGTTTACTGT
CCTGTTCAGAGGAGCAGGATTAGCTGGAAGTGACTTCATCACAGGTCTCATATCTCCTACAACTCGAGGTTTAAGAGAAG
CTATGAGAAATGAAGGTATTGAATTTTCTCTGCCTTTAATAAAAGAAAGTGGCCATAAGAAGGAGACAGCATCTGGAACA
AGCTTGGGATATGAGGAGCACGAA

Alignment

ORF - retro_mmul_711 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.21 %
• Parental protein coverage: 58.16 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRKRARSRGAAASPPRELPEPAARRAALAAGLHLRPFPAAGGRGGGGGPAAARRNPFARLDNRPRVAAEP
          R.KRARSRGAAASPPRELPEPAARRAALAAGLHLRPFPAAGGRGGGGGPAAA.RNPFARLDNRPRVAAE.
Retrocopy RQKRARSRGAAASPPRELPEPAARRAALAAGLHLRPFPAAGGRGGGGGPAAAQRNPFARLDNRPRVAAEL

Parental  PDGPAREQPEAPGPFLDSNQENDLLWEEKFPERTTVTELPQTSHVSFSESDIPSSENTELPVDWSIKTRL
          PDGPAREQPEAPGPFLDSNQENDLLW.EKFPERTTVTELPQTSHVSFSESDIPSSENTELPVDWSIKTRL
Retrocopy PDGPAREQPEAPGPFLDSNQENDLLWQEKFPERTTVTELPQTSHVSFSESDIPSSENTELPVDWSIKTRL

Parental  LFTSSQPFTWADHLKAQEEAQGLVQHCRATEVTLPKSIQDPKLSTELRCAFQQSLIYWLHPALSWLPLFP
          LF.SSQPFTWADHLKAQEEAQGLVQHCRATEVTLPKSIQDPKLSTELRCAF.QSLIYWL.PALSWLPL.P
Retrocopy LFISSQPFTWADHLKAQEEAQGLVQHCRATEVTLPKSIQDPKLSTELRCAF*QSLIYWLQPALSWLPLDP

Parental  RIGADRKMAGKTSPCSNDATLQHVLMSDWSVSFTSLYNLLKTKLCPYFYVCTYQFTVLFRAAGLAGSDLI
          RIGADRKMAGKTSP.SNDATLQHVLMSD.SVSFTSLYNLLKTKL.PYFYVCTYQFTVLFR.AGLAGSD.I
Retrocopy RIGADRKMAGKTSPWSNDATLQHVLMSD*SVSFTSLYNLLKTKLSPYFYVCTYQFTVLFRGAGLAGSDFI

Parental  TALISPTTRGLREAMRNEGIEFSLPLIKESGYKKETASGSSLGYGEEQ
          T.LISPTTRGLREAMRNEGIEFSLPLIKESG.KKETASG.SLGY.E..
Retrocopy TGLISPTTRGLREAMRNEGIEFSLPLIKESGHKKETASGTSLGYEEHE

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	11.09 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	8.09 RPM
SRP007412_cerebellum	0.13 RPM	14.40 RPM
SRP007412_heart	0.00 RPM	5.89 RPM
SRP007412_kidney	0.00 RPM	4.93 RPM
SRP007412_liver	0.00 RPM	4.16 RPM
SRP007412_testis	0.08 RPM	13.91 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_711 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_711 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_711 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
Equus caballus	ENSECAG00000007826	1 retrocopy	retro_ecab_657,
Echinops telfairi	ENSETEG00000019380	1 retrocopy	retro_etel_2077,
Macaca mulatta	ENSMMUG00000003701	1 retrocopy	retro_mmul_711 ,