RetrogeneDB ID: retro_nleu_1733

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397306.1:11635256..11635834(-)
• Located in intron of: ENSNLEG00000006292

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM210B
• Ensembl ID: ENSNLEG00000007028
• Aliases: None
• Description: None

Sequence

>retro_nleu_1733
ATGGCCGGGTTGCTGGTGTTGCTGGGCCCGCAGGCAGGGTGGGCGCCCGGGTCCGGCCTCGCGCCACCTGGCTCCTGGGC
GCCACCGCCCCCTGCGCCCCGCCACTCCTGGCCCTGGCCCTGCTCCTGCTCCCACCCAGGCCAGAAGCCTGGCTGCTCTG
CACGGTGCGCGGGGACTGCTGCGGCCACCAGTACCCCAGCCAGGCCACGGAGACAACAGGCAGCAGCGTCAGCTGCACAG
AGGAGAAAAAGCAAAGCAAGTCACGGCAACTAAAAAAGATTTTTCAAGAGTGTGGCACTGTTGGCGTGTCATTGCACATT
GGAATCTCATTAATCTCCTTGGGCATATTTTACATGGTTGTGTCAAGTGGTGTGGACATGTCTGCAATCCTGCTGAAACT
CGGATTTAAAGAGTCCCTGGTACAGTCAAAAATGGCAGCAGGCACAAGTACCTTCATGGTGGCCTATGCAATCCACAAGC
TGTTTGTGCCAGTGAGAATCAGCATTACGCTAGTCTCTGTGCCCTTGTTTGTCAGATATTTTCGAAAAGTGGGATTTTTT
AAATCTCCAGCTGCAAAA

Alignment

ORF - retro_nleu_1733 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.69 %
• Parental protein coverage: 97.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGLLALLGP-AGRVGARVRPRATWLLGATAPCAPPPLALALL--PPRPDPRLLRTARGDCRGHQDPSQA
          MAGLL.LLGP.AGRVGARVRPRATWLLGATAPCAPP.LALALL..PPRP...LL.T.RGDC.GHQ.PSQA
Retrocopy MAGLLVLLGP<AGRVGARVRPRATWLLGATAPCAPPLLALALLLLPPRPEAWLLCTVRGDCCGHQYPSQA

Parental  TETTGSSVSCTEEKKQSKTQQLKKIFQEYGTVGVSLHIGISLISLGIFYMIVSSGVDMSAILLKLGFKES
          TETTGSSVSCTEEKKQSK..QLKKIFQE.GTVGVSLHIGISLISLGIFYM.VSSGVDMSAILLKLGFKES
Retrocopy TETTGSSVSCTEEKKQSKSRQLKKIFQECGTVGVSLHIGISLISLGIFYMVVSSGVDMSAILLKLGFKES

Parental  LVQSKMAAGTSTFVVAYAIHKLFAPVRISITLVSVPLIVRYFRKVGFFKPPAAK
          LVQSKMAAGTSTF.VAYAIHKLF.PVRISITLVSVPL.VRYFRKVGFFK.PAAK
Retrocopy LVQSKMAAGTSTFMVAYAIHKLFVPVRISITLVSVPLFVRYFRKVGFFKSPAAK

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_1733 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000006630	1 retrocopy	retro_cpor_1046,
Homo sapiens	ENSG00000124098	1 retrocopy	retro_hsap_653,
Nomascus leucogenys	ENSNLEG00000007028	1 retrocopy	retro_nleu_1733 ,
Oryctolagus cuniculus	ENSOCUG00000017897	1 retrocopy	retro_ocun_1678,
Pongo abelii	ENSPPYG00000011147	2 retrocopies	retro_pabe_577, retro_pabe_659,
Pan troglodytes	ENSPTRG00000013645	1 retrocopy	retro_ptro_475,