RetrogeneDB ID: retro_nleu_2375

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397349.1:3525128..3525668(+)
• Located in intron of: ENSNLEG00000014043

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000229729
• Ensembl ID: ENSNLEG00000011752
• Aliases: None
• Description: None

Sequence

>retro_nleu_2375
ATGGCGGAGGAAGACAGCGATCAAAAGGCCGAATGCCTCAGAGAAGAGCTTGTGGCCACTGTGGAGTCCGGGCTGGGCCC
TGTGGGGCTTAGAGGTGTGGGCGACAGCAGAGGCGGTGCTGGCAGCTGCAGAGGCAGCGTTGCGATCAGCTGTCGGGGTT
ATTGCCGACGCTTCTGTCAGGTGGTTGAAGATTACGCTGGAAGATGGCAGGTCCCTTTGCCACAGCTTCAGGTTCTTCAG
ACTGTACTTTGTTGTTTTACAACAGCCAGTGCATCATTCCCAGATGAATGTGAGCACGTACATATTTTGAGTAGCCTTGC
TGTGAGTGTCTTCGAGTTGCTGCTGTTCTTTGGAAGAGGTGAGTTTTATGAAGAGCCCTTAAAGGATATTCTTGGATCAT
TCCAGGAATACCAAAATCACCTCCGCAGATACGGAAATGTGAATCTGGAACTGGTGACTCGAATCATTAGAGATAGCGGC
CCACGGGAAGATCCAGTGTCACAAGCTGTCCTTAAAGCTCAGCCAGCATCTCAGGAGATA

Alignment

ORF - retro_nleu_2375 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.79 %
• Parental protein coverage: 51.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEEESDQEAERLGEELVAIVESPLGPVGLRAAGDGRGGAGSGNCGGGVGISSRDYCRRFCQVVEDYAGR
          MAEE.SDQ.AE.L.EELVA.VES.LGPVGLR..GD.RGGAGS..C.G.V.IS.R.YCRRFCQVVEDYAGR
Retrocopy MAEEDSDQKAECLREELVATVESGLGPVGLRGVGDSRGGAGS--CRGSVAISCRGYCRRFCQVVEDYAGR

Parental  WQVPLPQLQVLQTALCCFTTASASFPDECEHVQYVLSSLAVSFFELLLFFGRDEFYEEPLKDILGSFQEC
          WQVPLPQLQVLQT.LCCFTTASASFPDECEHV...LSSLAVS.FELLLFFGR.EFYEEPLKDILGSFQE.
Retrocopy WQVPLPQLQVLQTVLCCFTTASASFPDECEHV-HILSSLAVSVFELLLFFGRGEFYEEPLKDILGSFQEY

Parental  QNHLRRYGNVNLELVTRIIRDGGPWEDPVLQAVLKAQPASQEI
          QNHLRRYGNVNLELVTRIIRD.GP.EDPV.QAVLKAQPASQEI
Retrocopy QNHLRRYGNVNLELVTRIIRDSGPREDPVSQAVLKAQPASQEI

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_2375 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000229729	1 retrocopy	retro_hsap_2075,
Nomascus leucogenys	ENSNLEG00000011752	1 retrocopy	retro_nleu_2375 ,
Pan troglodytes	ENSPTRG00000042169	1 retrocopy	retro_ptro_1527,