RetrogeneDB ID: retro_nleu_1509

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397297.1:2314801..2315388(+)
• Located in intron of: ENSNLEG00000013819

Retrocopy information

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

Parental gene information

• Parental gene symbol: FOSL1
• Ensembl ID: ENSNLEG00000005945
• Aliases: None
• Description: None

Sequence

>retro_nleu_1509
CCACAACCCCAGACAGCAGTCATCGGGGCCGTGGGGCCGCGTCCAGGGGTACGTTCTAGGCCTTGTGAACAGATCAGCCC
GGAAGAAGAGGAGATCTGCCAAGTAAGGCCCGAGCGGAACAAGCTGGCTGCGGCCAAGTGTAGGAACTGGAGGAGGAACT
GACCGACTTCCTGCAGGCAGAGACTGATGAACTGGAAGATGAGAAATCCGGACTGCAGCGAGAGATTGAGGAGCTGCAGA
AGCAGAAGGAGCGCCTGGAGCTGGTGCTGGAAGCCCACTGACCCATCTGCAAAATCCCCGAAGGAGCCAAGGAGGGGGAC
ACAGGCGGTACCAGCGGCACCAGCAGCCCGCCAGCCCCCTGCCGCCCTGTACCTTGTATCTCCCTTTTCCCAGGGCCTGT
GCTTGAACCTGAGGCACTGCACACCCCCAAGCTCATGACCACACCCTCCCTAACTCCTTTCACCCCCAGTCTGGTCTTCA
CCTCCCGCAGCACTCCTGAGCCCTGTGCCTCAGCTCATCACAAGAGTAGCAGCAGCAGCGGAGACCCATCCTCTGACCCC
CTAGGCTCTCCAACCCTCCTCGCTTTG

Alignment

ORF - retro_nleu_1509 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.34 %
• Parental protein coverage: 72.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PQPRPGVIRALGPPPAVRRRPCEQISPEEEERRRVRRERNKLAAAKCRNRRK-ELTDFLQAETDKLEDEK
          PQP...VI.A.GP.P.VR.RPCEQISPEEEE...VR.ERNKLAAAKCRN.R..ELTDFLQAETD.LEDEK
Retrocopy PQPQTAVIGAVGPRPGVRSRPCEQISPEEEEICQVRPERNKLAAAKCRNWRR<ELTDFLQAETDELEDEK

Parental  SGLQREIEELQKQKERLELVLEAHRPICKIPEGAKEADTGSTSSTSSPPAPCRPVPCISLSPGPVLEPEA
          SGLQREIEELQKQKERLELVLEAH.PICKIPEGAKE.DTG.TS.TSSPPAPCRPVPCISL.PGPVLEPEA
Retrocopy SGLQREIEELQKQKERLELVLEAH*PICKIPEGAKEGDTGGTSGTSSPPAPCRPVPCISLFPGPVLEPEA

Parental  LHTPKLMTTPSLTPFTPSLVFTSRSTPEPCASAHHKSSSSSGDPSSDPLGSPTLLAL
          LHTPKLMTTPSLTPFTPSLVFTSRSTPEPCASAHHKSSSSSGDPSSDPLGSPTLLAL
Retrocopy LHTPKLMTTPSLTPFTPSLVFTSRSTPEPCASAHHKSSSSSGDPSSDPLGSPTLLAL

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_1509 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000175592	1 retrocopy	retro_hsap_2981,
Macaca mulatta	ENSMMUG00000008653	1 retrocopy	retro_mmul_1904,
Nomascus leucogenys	ENSNLEG00000005945	1 retrocopy	retro_nleu_1509 ,
Pongo abelii	ENSPPYG00000003041	1 retrocopy	retro_pabe_2471,
Pan troglodytes	ENSPTRG00000003901	1 retrocopy	retro_ptro_2016,