RetrogeneDB ID: retro_nleu_4

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397317.1:7684291..7684642(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018885
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: GABARAP
• Ensembl ID: ENSNLEG00000008049
• Aliases: None
• Description: None

Sequence

>retro_nleu_4
ATGAAGTTCCAGTACAAGGAGCTTCATCCCTTAGATTATCGGAAAAAGGAAGGAGAAAAGATCTTGAAGAAATATCCGGA
CTGGGTCCCTTTGATTGTAGAGAAGGCTGCAAAAGTCAGGGTGCCTGATCCGGACAAGAGGAAGTACATAGTGCCCTCCG
ACCTTACCGATGGCCAGTTCTACTTTTTAATCCGGAAGAGAATCCACCTGAGACCTGAGGACGCCTTATTCTTCTTTGTC
AACAACATTATCCCTCCCATTAGTGCTACCATGGGCCAACTGTATGAGAACAGTCATGAGGAAGATGATTTTCTGTATGT
GGCCTACAGTAATGAGAGTGTCTATGGGAAA

Alignment

ORF - retro_nleu_4 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.72 %
• Parental protein coverage: 99.15 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKFVYKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLIRKRIHL
          MKF.YKE.HP...R..EGEKI.KKYPD.VP.IVEKA.K.R..D.DK.KY.VPSDLT.GQFYFLIRKRIHL
Retrocopy MKFQYKELHPLDYRKKEGEKILKKYPDWVPLIVEKAAKVRVPDPDKRKYIVPSDLTDGQFYFLIRKRIHL

Parental  RAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG
          R.EDALFFFVNN.IPP.SATMGQLY...HEED.FLY.AYS.ESVYG
Retrocopy RPEDALFFFVNNIIPPISATMGQLYENSHEEDDFLYVAYSNESVYG

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_4 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 15 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000012473	1 retrocopy	retro_cint_25,
Callithrix jacchus	ENSCJAG00000016655	2 retrocopies	retro_cjac_2851, retro_cjac_3820,
Gorilla gorilla	ENSGGOG00000013770	1 retrocopy	retro_ggor_821,
Loxodonta africana	ENSLAFG00000000744	1 retrocopy	retro_lafr_61,
Macaca mulatta	ENSMMUG00000010545	1 retrocopy	retro_mmul_155,
Mus musculus	ENSMUSG00000018567	1 retrocopy	retro_mmus_3107,
Nomascus leucogenys	ENSNLEG00000008049	2 retrocopies	retro_nleu_1670, retro_nleu_4 ,
Nomascus leucogenys	ENSNLEG00000011511	4 retrocopies	retro_nleu_1032, retro_nleu_1467, retro_nleu_2392, retro_nleu_931,
Nomascus leucogenys	ENSNLEG00000013048	2 retrocopies	retro_nleu_1560, retro_nleu_580,
Oryctolagus cuniculus	ENSOCUG00000006997	1 retrocopy	retro_ocun_311,
Pongo abelii	ENSPPYG00000007901	1 retrocopy	retro_pabe_122,
Pan troglodytes	ENSPTRG00000034115	1 retrocopy	retro_ptro_60,
Rattus norvegicus	ENSRNOG00000017417	2 retrocopies	retro_rnor_1818, retro_rnor_2093,
Sus scrofa	ENSSSCG00000017936	1 retrocopy	retro_sscr_163,
Drosophila melanogaster	FBgn0052672	1 retrocopy	retro_dmel_23,