RetrogeneDB ID: retro_nleu_320

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397263.1:32144890..32145878(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C18ORF25
• Ensembl ID: ENSNLEG00000011251
• Aliases: None
• Description: None

Sequence

>retro_nleu_320
GCATCCACAGAGAGTGACAAGCCTACAACTGGCCGAATTTATGAGAGTGACTCCTCTAATCACTGCATGCTTTCCCCTTC
CTCTAGTGATCACCTGGCTGATTCAGACAAGTTGTCTTCCGCAGAAGAGAATGAACTCTCTCAGGCAGAAATAGCGGTAG
AAGGAAACCCTTCAGGAGCGTCTGGTGCCACAGTTGGGCGCAAGTCTAGGAGGTCCCGATCTGAAAGTGAAACATCCACT
ATGGCTGCCAAGAAAAACTGGCAATCCAGTGATAAACAGAATGAGTTAAAGGTCATCGGAGCTAAAAGCACAAGGAGAGG
ATCAGGCTATTGAGGCACAAACGGGAGGTTTCTGCAAGCAGTACAACCTGCTGCAGGACAGTAAGTAGTACCAGTGATAG
TGACCTGACTTGTGACTTAAGCACGAGCTCATCCGATGATGATGAAGAGGTTTCAGGGAGCAGCAAGACAATCACTGCAG
AGATACCAGATGGACCTCCAGTTGTAGCTCATTATGGTATGCCTGACACCAGCTCTGACCCAGAAGTGTTAAAATGTGTA
CAATTTATCGGCGGCTGCAGTAGTTCAAGAGCACAATAATTCTATAGGCGGCCAGGACACAGGAGCTACCTGGAGGACCA
GCTGGCTTCTAGAGGAGCTGAATGCAGAGGCAGGTCATTTGCATCCAGGATTCCCAGCAAGTGACAAAATATCTGCCGGC
GATGCACCACTCAATGAAGAAATTAATATTGCCTCTTCAGATAGTGAAGTAGAGATTGTGGGAGTTCAGGAACATGCAAG
ATGTGTTCATCCTCGAGGTGGTATGATTCAGAGTCCTTCTACATGGAAGCATGGCTCTGGCACACAGTATCTTAGCACCA
GGCAGACACAGTCATGGAACTGCTGTGATCACCCAGCAGACTTGGGCTTCACCAGCAGAAGTTGTTGACTTTATCTTGGA
TGAGGATAGCAGGCATAAATACCTACTG

Alignment

ORF - retro_nleu_320 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.76 %
• Parental protein coverage: 82.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ASTESDKPTTGRVYESDSSNHCMLSPSSSGHLADSDTLSSAEENEPSQAETAVEGDPSGVSGATVGRKSR
          ASTESDKPTTGR.YESDSSNHCMLSPSSS.HLADSD.LSSAEENE.SQAE.AVEG.PSG.SGATVGRKSR
Retrocopy ASTESDKPTTGRIYESDSSNHCMLSPSSSDHLADSDKLSSAEENELSQAEIAVEGNPSGASGATVGRKSR

Parental  RSRSESETSTMAAKKNRQSSDKQNGRVAKVKGHRS-QKHKERIRLLRQKREAAARKKYNLLQDSSTSDSD
          RSRSESETSTMAAKKN.QSSDKQN....KV.G..S..K...R.........A............S.S..D
Retrocopy RSRSESETSTMAAKKNWQSSDKQN--ELKVIGAKS<HKERIRLLRHKREVSASSTTCCRTVSSTSDS--D

Parental  LTCDSSTSSSDDDEEVSGSSKTITAEIPDGPPVVAHYDMSDTNSDPEVV-NVDNLLAAAVVQEHNNSVGG
          LTCD.STSSSDDDEEVSGSSKTITAEIPDGPPVVAHY.M.DT.SDPEV..NV.NL.AAAVVQEHNNS.GG
Retrocopy LTCDLSTSSSDDDEEVSGSSKTITAEIPDGPPVVAHYGMPDTSSDPEVL>NVYNLSAAAVVQEHNNSIGG

Parental  QDTGATWRTSGLLEELNAEAGHLDPGFLASDKTSAGNAPLNEEINIASSDSEVEIVGVQEHARCVHPRGG
          QDTGATWRTS.LLEELNAEAGHL.PGF.ASDK.SAG.APLNEEINIASSDSEVEIVGVQEHARCVHPRGG
Retrocopy QDTGATWRTSWLLEELNAEAGHLHPGFPASDKISAGDAPLNEEINIASSDSEVEIVGVQEHARCVHPRGG

Parental  VIQSVSSWKHGSGTQYVSTRQTQSW-TAVTPQQTWASPAEVVDLTLDEDSRRKYLL
          .IQS.S.WKHGSGTQY.STRQTQSW.TAV..QQTWASPAEVVD..LDEDSR.KYLL
Retrocopy MIQSPSTWKHGSGTQYLSTRQTQSW>TAVITQQTWASPAEVVDFILDEDSRHKYLL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_320 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000008285	1 retrocopy	retro_cjac_2748,
Homo sapiens	ENSG00000152242	1 retrocopy	retro_hsap_2190,
Macaca mulatta	ENSMMUG00000011473	1 retrocopy	retro_mmul_917,
Nomascus leucogenys	ENSNLEG00000011251	1 retrocopy	retro_nleu_320 ,