RetrogeneDB ID: retro_mmul_2566

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:40795172..40796183(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C11ORF61
• Ensembl ID: ENSMMUG00000008488
• Aliases: None
• Description: None

Sequence

>retro_mmul_2566
GAGCTGGAGTCAGATGGCAGCACTATGGAGGACTATTCACAGGAGGACTGGGGAAACCACAGTCAGGATCTCCATGGCTA
TCCAACAGATCAGGAATTGGATGAAATACCTGTCACAAAGAGAACATTAAAAATAAAACAAGAGTCTTCTGAGGAAGCAC
GGAGGAGAGACATCATGCAGAATATTGTACAGATTTTGGAATCGGTACAGTTGAAATGGGAACTTTTTCAGAGCTGGACA
GACTTTTCAAGGCTCCATCTTTCTAATAAACTGGCCATTTTTGGAATTGGTTATAACACCCATTGGAAAGAGGATATCCG
TTACCATTATGCTGAGATCAGCTCCCAGGTGCCCCTTGGCAAGTGACTTCGGGAGTACTTCAACTCTGAGAAGTCTGAAG
GACGGATCATTATGACCCGAGTGCAGAAAATGAACTGGAAAAATATTTACTACACTTTTTTAGAGATCACTATTAGCGAA
GCTAGGTGCTTGGAGCTGCACATGGAAATTGACTGGATACCCATTGCCCATTCCAAACCAACTGGTGGGAATGTTGTTCA
ATATTTATTGCCTGGGGGTATTCCTAAAAGCCCAGGCCTTTATGCCATTGGCTATGAAGAATGTATTGAGAGGCCCCTCT
CACCACACATGGAGCAACCTTCCCCGGACCCAGGAAAAGAGGGCCGGGTTGACCTGAGAACTCTTTCAGCACAAGCCTCA
TTATAGGTGGAAATAGAACCCACCCGAATTATCTATTGCTACCTCTGGATTTTTGAGGTCAGGACTCTGCAGCAGTGCTT
ATTTTTACATTTCCAAGTGAATGCCAAAACCTTCAGCAAAGATTTGGTTGGTATTAATGGGTTTTTGTCTCAGAACTGTA
TTGTGGATCCCGGAGTTTCCCCCAAATCCATCTACATCAAATTTGTAGAAGTAGAGAGGGATTTTCTTTCCGCAGGCTCT
TTAGTTGAGTGCCTGGAAAAAGCCATTGGATACCCCTTAAAATTTAACAAC

Alignment

ORF - retro_mmul_2566 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.66 %
• Parental protein coverage: 60.29 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELESDGSTMEDYSQEDWGNHSQDLHGYPTDQELDEIPVTKRTLKIKQESSEEAQKRDIMQNIVQILESVQ
          ELESDGSTMEDYSQEDWGNHSQDLHGYPTDQELDEIPVTKRTLKIKQESSEEA..RDIMQNIVQILESVQ
Retrocopy ELESDGSTMEDYSQEDWGNHSQDLHGYPTDQELDEIPVTKRTLKIKQESSEEARRRDIMQNIVQILESVQ

Parental  LKWELFQSWTDFSRLHLSNKLAIFGIGYNTRWKEDIRYHYAEISSQVPLGKRLREYFNSEKPEGRIIMTR
          LKWELFQSWTDFSRLHLSNKLAIFGIGYNT.WKEDIRYHYAEISSQVPLGK.LREYFNSEK.EGRIIMTR
Retrocopy LKWELFQSWTDFSRLHLSNKLAIFGIGYNTHWKEDIRYHYAEISSQVPLGK*LREYFNSEKSEGRIIMTR

Parental  VQKMNWKNVYYKFLEITISEARCLELHMEIDWIPIAHSKPTGGNVVQYLLPGGIPKSPGLYAIGYEECIE
          VQKMNWKN.YY.FLEITISEARCLELHMEIDWIPIAHSKPTGGNVVQYLLPGGIPKSPGLYAIGYEECIE
Retrocopy VQKMNWKNIYYTFLEITISEARCLELHMEIDWIPIAHSKPTGGNVVQYLLPGGIPKSPGLYAIGYEECIE

Parental  RPLSPHMEQRSLDPGKEGRVDLETLSAQTSLQVEIEPTRITYCYLGIAEVRTLQQCLFLHFQANTKTFSK
          RPLSPHMEQ.S.DPGKEGRVDL.TLSAQ.SL.VEIEPTRI.YCYL.I.EVRTLQQCLFLHFQ.N.KTFSK
Retrocopy RPLSPHMEQPSPDPGKEGRVDLRTLSAQASL*VEIEPTRIIYCYLWIFEVRTLQQCLFLHFQVNAKTFSK

Parental  DWVGINGFLSQNCIVDPGVSPKSIYIKFVEVERDFLSAGSLVECLEKAIGYPLKFNN
          D.VGINGFLSQNCIVDPGVSPKSIYIKFVEVERDFLSAGSLVECLEKAIGYPLKFNN
Retrocopy DLVGINGFLSQNCIVDPGVSPKSIYIKFVEVERDFLSAGSLVECLEKAIGYPLKFNN

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	7.17 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	6.74 RPM
SRP007412_cerebellum	0.00 RPM	11.62 RPM
SRP007412_heart	0.00 RPM	3.65 RPM
SRP007412_kidney	0.00 RPM	7.98 RPM
SRP007412_liver	0.00 RPM	2.06 RPM
SRP007412_testis	0.00 RPM	2.53 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2566 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2566 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2566 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000008488	1 retrocopy	retro_mmul_2566 ,