RetrogeneDB ID: retro_nleu_1619

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397301.1:253147..253441(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SUPT4H1
• Ensembl ID: ENSNLEG00000008159
• Aliases: None
• Description: None

Sequence

>retro_nleu_1619
AGTGTTCAAGATACTGTAGACCAGTTTGAATATGATGGTTGTGACTATTGTGATGCATATCCACAGATGAAGGGTAACTG
AGAGATGATATATGGCTGCACCAGCTCCTCCTTTGATGGAATCATCACGATGATGAGTCCAAAGGACAGCGGGGTCTCCA
ACTGGCAGCGAGTCAATAACTTTAAGCCAGGCGTATATGCGGTGTCAGCCACTGGTCGCTTGCCCCAAGGAACCGTGCAG
GAGCTGAAAAGTCGAGGAGTGGCCTACAAATCCAAAGACACAGCTATAAAGACC

Alignment

ORF - retro_nleu_1619 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.63 %
• Parental protein coverage: 73.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SLVKTIDQFEYDGCDNCDAYLQMKGNREMVYDCTSSSFDGIIAMMSPEDSWVSKWQRVSNFKPGVYAVSV
          S...T.DQFEYDGCD.CDAY.QMKGN.EM.Y.CTSSSFDGII.MMSP.DS.VS.WQRV.NFKPGVYAVS.
Retrocopy SVQDTVDQFEYDGCDYCDAYPQMKGN*EMIYGCTSSSFDGIITMMSPKDSGVSNWQRVNNFKPGVYAVSA

Parental  TGRLPQGIVRELKSRGVAYKSRDTAIKT
          TGRLPQG.V.ELKSRGVAYKS.DTAIKT
Retrocopy TGRLPQGTVQELKSRGVAYKSKDTAIKT

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_1619 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 13 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017524	2 retrocopies	retro_cfam_1399, retro_cfam_553,
Homo sapiens	ENSG00000213246	2 retrocopies	retro_hsap_1081, retro_hsap_2280,
Gorilla gorilla	ENSGGOG00000007232	2 retrocopies	retro_ggor_1693, retro_ggor_854,
Macropus eugenii	ENSMEUG00000010164	1 retrocopy	retro_meug_2079,
Myotis lucifugus	ENSMLUG00000025583	1 retrocopy	retro_mluc_761,
Macaca mulatta	ENSMMUG00000007579	2 retrocopies	retro_mmul_1005, retro_mmul_842,
Mus musculus	ENSMUSG00000020485	2 retrocopies	retro_mmus_2857, retro_mmus_633,
Nomascus leucogenys	ENSNLEG00000008159	3 retrocopies	retro_nleu_1619 , retro_nleu_1962, retro_nleu_2714,
Oryctolagus cuniculus	ENSOCUG00000025823	2 retrocopies	retro_ocun_1613, retro_ocun_1636,
Pongo abelii	ENSPPYG00000008233	1 retrocopy	retro_pabe_1940,
Pan troglodytes	ENSPTRG00000009451	2 retrocopies	retro_ptro_1614, retro_ptro_735,
Pteropus vampyrus	ENSPVAG00000002320	1 retrocopy	retro_pvam_477,
Rattus norvegicus	ENSRNOG00000007845	3 retrocopies	retro_rnor_1255, retro_rnor_1973, retro_rnor_556,