RetrogeneDB ID: retro_nleu_1434

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397293.1:18036960..18037375(+)
• Located in intron of: ENSNLEG00000003679

Retrocopy information

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

Parental gene information

• Parental gene symbol: EXOSC3
• Ensembl ID: ENSNLEG00000003529
• Aliases: None
• Description: None

Sequence

>retro_nleu_1434
TATATTCTAGTGAAATGAGACCAGGTGACTGGCATAGTGACAGCTAAATCTGGAGATATATTCAGAGTTGATGTTGGAGG
GAGTGAGCCAGTTTCTTTGTCTTACTTGGCATTTGAAGGTGCAACTAAAAGAAACAGACCAAATGTGCAGGTTGGAGATC
TCATCTATGGCCAATTTGTGGTTGCTAATAAAGACATGGAACCAGAGAAGGTCTGTATTGACAGCTATGGATGAGCCAAT
GGAATGAATGTCATTGGACAGGATGGTCTGCTTTTTAAAGTGACTGGGCTTCATTAGAAAGCTGTTAGCTCCAGATTGTG
AAATCAAACAGGAAGTGGGAATACTCTATCCACTGAAGATAGTATTTGGAATGAATGGAAGAATATGGGTTAAGGGAAAA
ACCATCCAGCAGACT

Alignment

ORF - retro_nleu_1434 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.14 %
• Parental protein coverage: 50.55 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YVPVKGDHVIGIVTAKSGDIFKVDVGGSEPASLSYLSFEGATKRNRPNVQVGDLIYGQFVVANKDMEPEM
          Y..VK.D.V.GIVTAKSGDIF.VDVGGSEP.SLSYL.FEGATKRNRPNVQVGDLIYGQFVVANKDMEPE.
Retrocopy YILVK*DQVTGIVTAKSGDIFRVDVGGSEPVSLSYLAFEGATKRNRPNVQVGDLIYGQFVVANKDMEPEK

Parental  VCIDSCGRANGMGVIGQDGLLFKVTLGL-IRKLLAPDCEIIQEVGKLYPLEIVFGMNGRIWVKAKTIQQT
          VCIDS.G.ANGM.VIGQDGLLFKVT.GL.IRKLLAPDCEI.QEVG.LYPL.IVFGMNGRIWVK.KTIQQT
Retrocopy VCIDSYG*ANGMNVIGQDGLLFKVT-GL>IRKLLAPDCEIKQEVGILYPLKIVFGMNGRIWVKGKTIQQT

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_1434 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000107371	1 retrocopy	retro_hsap_2504,
Gorilla gorilla	ENSGGOG00000006970	1 retrocopy	retro_ggor_1562,
Nomascus leucogenys	ENSNLEG00000003529	1 retrocopy	retro_nleu_1434 ,
Ornithorhynchus anatinus	ENSOANG00000000886	1 retrocopy	retro_oana_13,
Pongo abelii	ENSPPYG00000019055	1 retrocopy	retro_pabe_1843,
Pan troglodytes	ENSPTRG00000020952	1 retrocopy	retro_ptro_1455,