RetrogeneDB ID: retro_nleu_258

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:47174641..47174937(+)
• Located in intron of: ENSNLEG00000007311

Retrocopy information

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

Parental gene information

• Parental gene symbol: COX7A2L
• Ensembl ID: ENSNLEG00000016666
• Aliases: None
• Description: None

Sequence

>retro_nleu_258
ATGTACAACAAATTTAGTGGCTTCACGTTCAAGTTGGTGGGAGCATGGACTTCAGAGGCTTATACCCCATAGGGATTAAA
GCCTGTGGCTTCCACAGAAGCACCACCTATCATATTTGCCATACCAACTAAGCCGACCTCTGATTCCGTTGCATATAATT
TTGCTATGAAAAACAAAGTTCCAGAGCTGCAGAATTTCTCCAGAAAGCTGATGATGTGCCCATCCACCTGAAATGAGGCT
TCCCTGACCAAATGCTATACTGGACCACCATGGTGCTGACTGTGGGTGGGAGACTG

Alignment

ORF - retro_nleu_258 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74. %
• Parental protein coverage: 86.84 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MYYKFSGFTQKLAGAWASEAYSPQGLKPVVSTEAPPIIFATPTKLTSDSTVYDYAGKNKVPELQ-KFFQK
          MY.KFSGFT.KL.GAW.SEAY.P.GLKPV.STEAPPIIFA.PTK.TSDS..Y..A.KNKVPELQ..F.QK
Retrocopy MYNKFSGFTFKLVGAWTSEAYTP*GLKPVASTEAPPIIFAIPTKPTSDSVAYNFAMKNKVPELQ<EFLQK

Parental  ADGVPVYLKRGLPDQMLYRTTMALTVGGTI
          AD.VP..LK.G.PDQMLY.TTM.LTVGG..
Retrocopy ADDVPIHLK*GFPDQMLYWTTMVLTVGGRL

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_258 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 12 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011940	1 retrocopy	retro_etel_650,
Homo sapiens	ENSG00000115944	1 retrocopy	retro_hsap_825,
Gorilla gorilla	ENSGGOG00000010739	1 retrocopy	retro_ggor_674,
Macaca mulatta	ENSMMUG00000016278	1 retrocopy	retro_mmul_110,
Mustela putorius furo	ENSMPUG00000008875	1 retrocopy	retro_mputfur_97,
Mus musculus	ENSMUSG00000024248	2 retrocopies	retro_mmus_32, retro_mmus_926,
Nomascus leucogenys	ENSNLEG00000004949	2 retrocopies	retro_nleu_1412, retro_nleu_735,
Nomascus leucogenys	ENSNLEG00000016666	1 retrocopy	retro_nleu_258 ,
Oryctolagus cuniculus	ENSOCUG00000027189	3 retrocopies	retro_ocun_1617, retro_ocun_1781, retro_ocun_28,
Otolemur garnettii	ENSOGAG00000016029	1 retrocopy	retro_ogar_114,
Pan troglodytes	ENSPTRG00000011865	1 retrocopy	retro_ptro_575,
Ictidomys tridecemlineatus	ENSSTOG00000012922	1 retrocopy	retro_itri_21,