RetrogeneDB ID: retro_nleu_1508

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397297.1:1940701..1940971(+)
• Located in intron of: ENSNLEG00000013603

Retrocopy information

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

Parental gene information

• Parental gene symbol: C9ORF80
• Ensembl ID: ENSNLEG00000016554
• Aliases: None
• Description: None

Sequence

>retro_nleu_1508
CAAGTTGCAATCTTGGCAGAACTGGACAAAGAGAAAAGAAAACTACTTGTGCAGAACCAGTCTTCAACAAATCATCCTGG
AGCTAGCATTGCACTCTCGAGACCCTGTCTTAATAACGACTTTCGGGATCACACTGAGCAGCAGTATATTGCAGCCCAGC
AGAAGGCAGCTTTGCAGCATGCTCATGCACGTTCATTTGGATACTTCATAACTCAAGACTCTGCATTTGGGAACCTGATT
CTTCCTGTTTTACCTTGCCTTGACCCAGAA

Alignment

ORF - retro_nleu_1508 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.0 %
• Parental protein coverage: 86.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RVAILAELDKEKRKLLMQNQSSTNHPGASIALSRPSLNKDFRDHAEQQHIAAQQKAALQHAHAHSSGYFI
          .VAILAELDKEKRKLL.QNQSSTNHPGASIALSRP.LN.DFRDH.EQQ.IAAQQKAALQHAHA.S.GYFI
Retrocopy QVAILAELDKEKRKLLVQNQSSTNHPGASIALSRPCLNNDFRDHTEQQYIAAQQKAALQHAHARSFGYFI

Parental  TQDSAFGNLILPVLPRLDPE
          TQDSAFGNLILPVLP.LDPE
Retrocopy TQDSAFGNLILPVLPCLDPE

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_1508 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006841	1 retrocopy	retro_amel_1661,
Equus caballus	ENSECAG00000008524	1 retrocopy	retro_ecab_187,
Homo sapiens	ENSG00000148153	1 retrocopy	retro_hsap_2980,
Microcebus murinus	ENSMICG00000001130	1 retrocopy	retro_mmur_92,
Nomascus leucogenys	ENSNLEG00000016554	1 retrocopy	retro_nleu_1508 ,
Oryctolagus cuniculus	ENSOCUG00000016717	1 retrocopy	retro_ocun_335,
Oryzias latipes	ENSORLG00000011577	1 retrocopy	retro_olat_8,
Pan troglodytes	ENSPTRG00000023472	1 retrocopy	retro_ptro_2015,
Sorex araneus	ENSSARG00000003661	1 retrocopy	retro_sara_104,
Xiphophorus maculatus	ENSXMAG00000002259	1 retrocopy	retro_xmac_8,