RetrogeneDB ID: retro_nleu_666

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397269.1:15955277..15955558(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KIAA1143
• Ensembl ID: ENSNLEG00000005987
• Aliases: None
• Description: None

Sequence

>retro_nleu_666
CGGCCAGCTGAGCCAGCATTCCTGGCTCGCTTCAAGGAATGGGTTGGCTATAAGAAGGAGCCCACCATAGAGACCAAGAG
AATCCAGCCTCATCTCCAGATGAAAATGGGGATCACAGTGACAAAGATGAAGAGCCTCAAGTGATGGTTTTTAAAAAGGG
AGACCTGTCAGTTGAAGAAGTCATGAAAATTAAAGCAGAAGTAAAGGCTGCCAAAGCAGATAAAGAACTAGCTCGAGCTG
AGGGAAGAATCACGTATCAAAAACCAGTGAAGCACCAGTCA

Alignment

ORF - retro_nleu_666 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.04 %
• Parental protein coverage: 61.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RPAEPAFLARFKERVGHREGPTVETKRIQPQ-PPDEDRDHSDKEDEQPQVVVLKKGDLSVEEVMKIKAEI
          RPAEPAFLARFKE.VG....PT.ETKRIQP...PDE..DHSDK.DE.PQV.V.KKGDLSVEEVMKIKAE.
Retrocopy RPAEPAFLARFKEWVGYKKEPTIETKRIQPH<SPDENGDHSDK-DEEPQVMVFKKGDLSVEEVMKIKAEV

Parental  KAAKADEEPAPADGRIIYRKPVKHPS
          KAAKAD.E.A.A.GRI.Y.KPVKH.S
Retrocopy KAAKADKELARAEGRITYQKPVKHQS

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_666 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014132	1 retrocopy	retro_cfam_2208,
Homo sapiens	ENSG00000163807	2 retrocopies	retro_hsap_1399, retro_hsap_2762,
Nomascus leucogenys	ENSNLEG00000005987	1 retrocopy	retro_nleu_666 ,
Oryctolagus cuniculus	ENSOCUG00000000929	2 retrocopies	retro_ocun_1601, retro_ocun_432,
Pongo abelii	ENSPPYG00000013954	1 retrocopy	retro_pabe_2250,
Pan troglodytes	ENSPTRG00000014824	1 retrocopy	retro_ptro_1869,
Pteropus vampyrus	ENSPVAG00000012438	2 retrocopies	retro_pvam_367, retro_pvam_458,
Sus scrofa	ENSSSCG00000011308	2 retrocopies	retro_sscr_844, retro_sscr_874,
Ictidomys tridecemlineatus	ENSSTOG00000010817	1 retrocopy	retro_itri_307,