RetrogeneDB ID: retro_nleu_1172

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397283.1:15802793..15803197(-)
• Located in intron of: ENSNLEG00000013239

Retrocopy information

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

Parental gene information

• Parental gene symbol: COQ10B
• Ensembl ID: ENSNLEG00000006871
• Aliases: None
• Description: None

Sequence

>retro_nleu_1172
ATGGCAGCTTGGACTGGTCAGGCAGCCTTGAGAAGGGTGGTCTTGGGATGCCATCTGAAGTCGGCTACAGTGGTCGGAGT
GTGGGCTCCAGTGCAGGGGCCTGTGCAGAATGTCAGATATTTAGCTTCCTGTGGTATACTGATGAGCAGAACTCTTCCAC
TACATACCTCAATTTGCCTAAGGAGATATGTGCAAGAACTTTCTTCAAAATCGCGGCACCATTAATAAACAAAAGGAAAG
AATATTCAGAGAGAATTTTAAGACATTCAGGAAACATGAAGGAAATGCATGATGTAGTATCAGGAATAGAGGATTACAAG
CATTTCATTCCTTGGTGTAAAACATCAGATGTAGTATCAAAGAGATCCGGATATTGTAAAACACAATTAGAAATTGGGTT
TCCT

Alignment

ORF - retro_nleu_1172 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.1 %
• Parental protein coverage: 54.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAARTGHTALRRVVSGCRPKSATAAGA----QAPVRNGRYLASCGILMSRTLPLHTSI-LPKEICARTFF
          MAA.TG..ALRRVV.GC..KSAT..G.....Q.PV.N.RYLASCGILMSRTLPLHTSI.LPKEICARTFF
Retrocopy MAAWTGQAALRRVVLGCHLKSATVVGVWAPVQGPVQNVRYLASCGILMSRTLPLHTSI<LPKEICARTFF

Parental  KITAPLINKRKEYSERRILGYS--MQEMYDVVSGVEDYKHFVPWCKKSDVISKRSGYCKTRLEIGFP
          KI.APLINKRKEYSER.IL..S..M.EM.DVVSG.EDYKHF.PWCK.SDV.SKRSGYCKT.LEIGFP
Retrocopy KIAAPLINKRKEYSER-ILRHSGNMKEMHDVVSGIEDYKHFIPWCKTSDVVSKRSGYCKTQLEIGFP

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_1172 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 19 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004659	2 retrocopies	retro_btau_1595, retro_btau_1832,
Choloepus hoffmanni	ENSCHOG00000005807	1 retrocopy	retro_chof_1504,
Callithrix jacchus	ENSCJAG00000003971	1 retrocopy	retro_cjac_1836,
Dasypus novemcinctus	ENSDNOG00000003229	2 retrocopies	retro_dnov_1571, retro_dnov_2203,
Dipodomys ordii	ENSDORG00000004090	1 retrocopy	retro_dord_508,
Erinaceus europaeus	ENSEEUG00000001626	1 retrocopy	retro_eeur_401,
Felis catus	ENSFCAG00000022385	1 retrocopy	retro_fcat_1487,
Homo sapiens	ENSG00000115520	1 retrocopy	retro_hsap_3349,
Gorilla gorilla	ENSGGOG00000023373	2 retrocopies	retro_ggor_2270, retro_ggor_569,
Myotis lucifugus	ENSMLUG00000000865	1 retrocopy	retro_mluc_1236,
Macaca mulatta	ENSMMUG00000010488	1 retrocopy	retro_mmul_2434,
Monodelphis domestica	ENSMODG00000012281	1 retrocopy	retro_mdom_600,
Mus musculus	ENSMUSG00000025981	1 retrocopy	retro_mmus_3224,
Nomascus leucogenys	ENSNLEG00000006871	1 retrocopy	retro_nleu_1172 ,
Ochotona princeps	ENSOPRG00000010091	3 retrocopies	retro_opri_1020, retro_opri_173, retro_opri_664,
Pongo abelii	ENSPPYG00000013045	2 retrocopies	retro_pabe_2758, retro_pabe_576,
Pan troglodytes	ENSPTRG00000012772	1 retrocopy	retro_ptro_2137,
Rattus norvegicus	ENSRNOG00000014456	1 retrocopy	retro_rnor_1620,
Tarsius syrichta	ENSTSYG00000012642	2 retrocopies	retro_tsyr_1213, retro_tsyr_1666,