RetrogeneDB ID: retro_nleu_360

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397263.1:46407233..46407731(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DAZAP2
• Ensembl ID: ENSNLEG00000017776
• Aliases: None
• Description: DAZ associated protein 2 [Source:HGNC Symbol;Acc:2684]

Sequence

>retro_nleu_360
AACAGCAAAGGTCAATATCCAACACAGCCAACCTAGCCTGTGCAGCCTCCTGGGAATCCAGTATACCCTTAGACCTTGTA
TCTTTCTCAGGCTCCACCCTATACTGATGCTCCAACTGCCTACTCAGAGCTCTATCATCCAAGCTTTGTGCACCCAGGCG
CTGCCACAGTCCCCACGTCAGCCGCATTTCTTGGAGCCTCTCTCTATCTTCCCATGGCCCAGTCTGTGGCTGTTGGGTCT
TTAGGTTCCACAATCCCCATGGCTTATTATCCAGTTGGTCCTATCTATCCACCTGGCTCCACAGTGCTGGTGGAAGGAGG
GTATGATGCAGGTGCCAGATTTGGAGCTGGGGCTACTGCTGGCAACATTCCTCGTCCACCTCCTGGATGCCCTCCCAGTG
CTGCTCAACTTGCAGTCATGCAGGGAGCCAATGTCCTCGTAACTCAGTGGAAGGGGAGCTTCTTCATGGGTGAATCAGAT
GGTGGCTACACCATCTGG

Alignment

ORF - retro_nleu_360 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.02 %
• Parental protein coverage: 99.4 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NSKGQYPTQPTYPVQPPGNPVYPQTLHLPQAPPYTDAPPAYSELYRPSFVHPGAATVPTMSAAFPGASLY
          NSKGQYPTQPT.PVQPPGNPVYP.TL.L.QAPPYTDAP.AYSELY.PSFVHPGAATVPT.SAAF.GASLY
Retrocopy NSKGQYPTQPT*PVQPPGNPVYP*TLYLSQAPPYTDAPTAYSELYHPSFVHPGAATVPT-SAAFLGASLY

Parental  LPMPQSVAVGPLGSTIPMAYYPVGPIYPPGSTVLVEGGYDAGARFGAGATAGNIPPPPPGCPPNAAQLAV
          LPM.QSVAVG.LGSTIPMAYYPVGPIYPPGSTVLVEGGYDAGARFGAGATAGNIP.PPPGCPP.AAQLAV
Retrocopy LPMAQSVAVGSLGSTIPMAYYPVGPIYPPGSTVLVEGGYDAGARFGAGATAGNIPRPPPGCPPSAAQLAV

Parental  MQGANVLVTQRKGNFFMGGSDGGYTIW
          MQGANVLVTQ.KG.FFMG.SDGGYTIW
Retrocopy MQGANVLVTQWKGSFFMGESDGGYTIW

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_360 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017661	2 retrocopies	retro_cjac_636, retro_cjac_793,
Homo sapiens	ENSG00000183283	1 retrocopy	retro_hsap_2370,
Gorilla gorilla	ENSGGOG00000026861	1 retrocopy	retro_ggor_1800,
Myotis lucifugus	ENSMLUG00000009959	1 retrocopy	retro_mluc_351,
Macaca mulatta	ENSMMUG00000001884	1 retrocopy	retro_mmul_958,
Nomascus leucogenys	ENSNLEG00000017776	1 retrocopy	retro_nleu_360 ,
Otolemur garnettii	ENSOGAG00000007977	3 retrocopies	retro_ogar_2109, retro_ogar_2139, retro_ogar_3130,
Pongo abelii	ENSPPYG00000004524	1 retrocopy	retro_pabe_2140,