RetrogeneDB ID: retro_nleu_1387

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397291.1:22535041..22535505(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZFAND6
• Ensembl ID: ENSNLEG00000008870
• Aliases: None
• Description: None

Sequence

>retro_nleu_1387
AGCCTACCTGCAACCTCTGAATCTTTACCAGTTCAATGCACAGATGGCCGTGTCCCAGAAGCTCAGTCAACATTAGACTC
TACATCTTCATCTATGCAGCCAAGCCCTGTATCAAATCAGTCACCTTTATCAGAATCTGTAGCATCTTCTCATTTGGACA
GTACATCTGTGGACAAGCAGTACCTGAAACAGAAGATCTGCAGGCTTCAGTATCAGACATGGCACAGCAGCCATCTGAAG
AGCAATGCAAGTCTCTTGAAAAACCAAAACAAAAAAAGAATCACTGTTTCATGTGTAGGAAGAAAGTGGGACTTACTGGG
TTTGAATGCCGGTATAGAAATGTTTACTGCGGTGTACACTGTTACTCAGATGTACACAATTGCTCTTACAATTACAAAGC
TGATGCCACTGAGAAAATCAGAAAAGAAAATCCAGTAGTTGTTGGTGAAAAGATCCAAAAGATT

Alignment

ORF - retro_nleu_1387 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.26 %
• Parental protein coverage: 69.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SVSSLSESLPVQCTDGSVPEAQSTLDSTSSSMQPSPVSNQSLLSESVASSQLDSTSVDK-AVPETEDLQA
          S....SESLPVQCTDG.VPEAQSTLDSTSSSMQPSPVSNQS.LSESVASS.LDSTSVDK.AVPETEDLQA
Retrocopy SLPATSESLPVQCTDGRVPEAQSTLDSTSSSMQPSPVSNQSPLSESVASSHLDSTSVDK<AVPETEDLQA

Parental  SVSDTAQRPSEEQSKSLEKPKQKKNRCFMCRKKVGLTGFECRCGNVYCGVHRYSDVHNCSYNYKADAAEK
          SVSD.AQ.PSEEQ.KSL.......N.CFMCRKKVGLTGFECR..NVYCGVH.YSDVHNCSYNYKADA.EK
Retrocopy SVSDMAQQPSEEQCKSLXXXXXXXNHCFMCRKKVGLTGFECRYRNVYCGVHCYSDVHNCSYNYKADATEK

Parental  IRKENPVVVGEKIQKI
          IRKENPVVVGEKIQKI
Retrocopy IRKENPVVVGEKIQKI

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_1387 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 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012321	1 retrocopy	retro_btau_593,
Choloepus hoffmanni	ENSCHOG00000009491	2 retrocopies	retro_chof_1516, retro_chof_2072,
Felis catus	ENSFCAG00000012931	2 retrocopies	retro_fcat_1024, retro_fcat_1998,
Homo sapiens	ENSG00000086666	1 retrocopy	retro_hsap_4153,
Gorilla gorilla	ENSGGOG00000015621	1 retrocopy	retro_ggor_2790,
Loxodonta africana	ENSLAFG00000006722	1 retrocopy	retro_lafr_587,
Monodelphis domestica	ENSMODG00000019428	1 retrocopy	retro_mdom_685,
Nomascus leucogenys	ENSNLEG00000008870	1 retrocopy	retro_nleu_1387 ,
Pan troglodytes	ENSPTRG00000007361	2 retrocopies	retro_ptro_1375, retro_ptro_2824,
Rattus norvegicus	ENSRNOG00000013506	1 retrocopy	retro_rnor_2019,
Sus scrofa	ENSSSCG00000001779	2 retrocopies	retro_sscr_1206, retro_sscr_1207,