RetrogeneDB ID: retro_nleu_2913

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397482.1:215336..215577(+)
• Located in intron of: ENSNLEG00000009946

Retrocopy information

• Ensembl ID: ENSNLEG00000009952
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DPH3
• Ensembl ID: ENSNLEG00000001096
• Aliases: None
• Description: None

Sequence

>retro_nleu_2913
ATGGCAGTATTTCACGACGAGGTGGAAATCGAGGACTTTCAATATGACGAGGATTCGGAGACATATTCCCTGCCCATGTG
GAGATAACTTCTCCATCACCAAGGAAGAGCTGGAGAATGGGGAAGGTGTGGCAATGTGTCCTAGCTGCTCTCTCATTATA
AAAGTGATTTATGACAAAGATCAGTTTGCGTGTGGAGAAACAGTCCCAGTGCCTTCAGCCAACAAAGAGTGAGTTAAATG
C

Alignment

ORF - retro_nleu_2913 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.13 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAVFHDEVEIEDFQYDEDSETYFY-PCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQFVCGET
          MAVFHDEVEIEDFQY..D.....Y.PCPCGDNFSITKE.LENGE.VA.CPSCSLIIKVIYDKDQF.CGET
Retrocopy MAVFHDEVEIEDFQY--DEDSETY>PCPCGDNFSITKEELENGEGVAMCPSCSLIIKVIYDKDQFACGET

Parental  VPAPSANKELVKC
          VP.PSANKE.VKC
Retrocopy VPVPSANKE*VKC

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_2913 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 15 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012030	1 retrocopy	retro_dnov_39,
Dipodomys ordii	ENSDORG00000011642	1 retrocopy	retro_dord_167,
Erinaceus europaeus	ENSEEUG00000009790	1 retrocopy	retro_eeur_502,
Echinops telfairi	ENSETEG00000016272	1 retrocopy	retro_etel_1879,
Homo sapiens	ENSG00000154813	1 retrocopy	retro_hsap_2438,
Gorilla gorilla	ENSGGOG00000022108	1 retrocopy	retro_ggor_174,
Loxodonta africana	ENSLAFG00000025650	3 retrocopies	retro_lafr_31, retro_lafr_545, retro_lafr_87,
Macaca mulatta	ENSMMUG00000022692	2 retrocopies	retro_mmul_2085, retro_mmul_497,
Monodelphis domestica	ENSMODG00000025472	3 retrocopies	retro_mdom_131, retro_mdom_1434, retro_mdom_609,
Mus musculus	ENSMUSG00000021905	1 retrocopy	retro_mmus_196,
Nomascus leucogenys	ENSNLEG00000001096	2 retrocopies	retro_nleu_2876, retro_nleu_2913 ,
Pongo abelii	ENSPPYG00000014083	1 retrocopy	retro_pabe_1795,
Pan troglodytes	ENSPTRG00000014671	1 retrocopy	retro_ptro_1409,
Tupaia belangeri	ENSTBEG00000011675	1 retrocopy	retro_tbel_58,
Tursiops truncatus	ENSTTRG00000007739	3 retrocopies	retro_ttru_1474, retro_ttru_31, retro_ttru_907,