RetrogeneDB ID: retro_nleu_2581

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397376.1:493116..493716(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OR5J2
• Ensembl ID: ENSNLEG00000012541
• Aliases: None
• Description: None

Sequence

>retro_nleu_2581
TTGTTCCTGACTACTGAATGCTTCCTCCTGCCTGCCATGGCATGTGATCGGTATCCCGCTGTTTGCCACCTACTTCACTA
CAAAGGTCTCATGACTCCTACTTTCTGCATCTACCTGGTGACTGTTTCTTACCTGCTGGGCTCTGTAAACTCCCTCACCC
ACCTGAGTAGCTTACTCAGTTTGTCTTTCTGTGGGCCCAATGTTATCAACCATTATTTCTGTGACATTCCATTGCTCTTC
CAACTCTCCTGTTCCAACACCCAACACAGTAAGATTTTATTTACTGTCCTTTCTGGAGCAACATCAGTGACTACCTTTTT
GATAATGGTTAGTTCCTATCTGGGAATCCTGCTCACTGTCCTGAAGATACATTCCACCAGGGGCAGAAATAAAGCCATAT
CCACATGTGCCTCCCACCTAATGGTAGTGGCTCTCTTCTATGGAACAGTGATATTTACTTATCTGGGAACCAGCTCTAGC
TACTCACAGGATAGAGCCAAAATTCTGTCTGTGGTGTATACACTTTTGTTGCCAATACTAAATCTTCTAATATATAGCGT
GAGAAACAGAGAAGTCAAAGAAGCCATGAAAATGATTATT

Alignment

ORF - retro_nleu_2581 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.61 %
• Parental protein coverage: 81.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VYVTTEGILLSMTVYDRYVAIANPLLYTVIMTQRVCIQMVLASYLGGLINSLTHTIGLLKLDFCGPNIMD
          ...TTE..LL.....DRY.A....L.Y...MT...CI..V..SYL.G..NSLTH...LL.L.FCGPN...
Retrocopy LFLTTECFLLPAMACDRYPAVCHLLHYKGLMTPTFCIYLVTVSYLLGSVNSLTHLSSLLSLSFCGPNVIN

Parental  HYFCDVPPLLRLSCSDVHISEMLLLVFSGLIAMFTFIVIMVSYIRIIIAIQRIHAAEGRHKAFSTCTSHL
          HYFCD.P.L..LSCS....S..L..V.SG.....TF.....SY..I......IH...GR.KA.STC.SHL
Retrocopy HYFCDIPLLFQLSCSNTQHSKILFTVLSGATSVTTFLIMVSSYLGILLTVLKIHSTRGRNKAISTCASHL

Parental  ITVTLFYGSISFMIFTYLGTSSSYSQDRAKILSVVYTLLLPILNLLIYSVRNREVKEAMKMII
          ..V.LFYG.....IFTYLGTSSSYSQDRAKILSVVYTLLLPILNLLIYSVRNREVKEAMKMII
Retrocopy MVVALFYGTV---IFTYLGTSSSYSQDRAKILSVVYTLLLPILNLLIYSVRNREVKEAMKMII

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_2581 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000012541	1 retrocopy	retro_nleu_2581 ,
Pelodiscus sinensis	ENSPSIG00000006205	1 retrocopy	retro_psin_40,