RetrogeneDB ID: retro_nleu_184

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397261.1:48504958..48505288(+)
• Located in intron of: ENSNLEG00000017052

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS25
• Ensembl ID: ENSNLEG00000005218
• Aliases: None
• Description: None

Sequence

>retro_nleu_184
CCTTGGATGCAGATCATGATGTTTAAGAACACAATACCATTACCCTTCCTACAATTCTATTTATATTATGAAGAGCAGGT
CCTGGTGGATATAGAGATCAAGATGAATAAGGAGATCATGGAACACATCAAAAAAATTGTGGGGAAGAATGAGGACACAA
GAAAGGAGAGCAGGAGAAAAAGCAGCTCTCTCACCCAGCTCATTTTGGCCTTCAAAGTAGTTCTGATGGGAATCTACCTG
TGAAGTGAAAGGGCAGGTGCCCTATCCAGGCTAGTGGCATTACCCAAGGAGAAGACAGGGAAGTACAAAGCAACACTGAA
AGCCAGTGCC

Alignment

ORF - retro_nleu_184 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.3 %
• Parental protein coverage: 77.62 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PWVQIMMFKNMTPSPFLRFYLDSGEQVLVDVETKSNKEIMEHIRKILGKNEETLRE-EEEKKQLSHPANF
          PW.QIMMFKN..P.PFL.FYL...EQVLVD.E.K.NKEIMEHI.KI.GKNE.T..E.E.EKKQLSHPA.F
Retrocopy PWMQIMMFKNTIPLPFLQFYLYYEEQVLVDIEIKMNKEIMEHIKKIVGKNEDTRKE<EQEKKQLSHPAHF

Parental  G-PRKYCLRECICEVEGQVPCPS-LVPLPKEMRGKYKAALKASA
          G.P.K....E..CEV.GQVP.P..LV.LPKE..GKYKA.LKASA
Retrocopy G<PSK*F*WESTCEVKGQVPYPG<LVALPKEKTGKYKATLKASA

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_184 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 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017160	1 retrocopy	retro_cjac_3303,
Homo sapiens	ENSG00000131368	1 retrocopy	retro_hsap_1127,
Gorilla gorilla	ENSGGOG00000011005	1 retrocopy	retro_ggor_880,
Latimeria chalumnae	ENSLACG00000009006	1 retrocopy	retro_lcha_49,
Macaca mulatta	ENSMMUG00000005157	2 retrocopies	retro_mmul_1946, retro_mmul_874,
Nomascus leucogenys	ENSNLEG00000005218	1 retrocopy	retro_nleu_184 ,
Pongo abelii	ENSPPYG00000013409	1 retrocopy	retro_pabe_932,
Pelodiscus sinensis	ENSPSIG00000008882	1 retrocopy	retro_psin_36,
Pan troglodytes	ENSPTRG00000014658	1 retrocopy	retro_ptro_678,
Rattus norvegicus	ENSRNOG00000010912	1 retrocopy	retro_rnor_1184,
Ictidomys tridecemlineatus	ENSSTOG00000027997	1 retrocopy	retro_itri_984,