RetrogeneDB ID: retro_nleu_1971

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397320.1:8591575..8591809(+)
• Located in intron of: ENSNLEG00000003333

Retrocopy information

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

Parental gene information

• Parental gene symbol: VMA21
• Ensembl ID: ENSNLEG00000013711
• Aliases: None
• Description: None

Sequence

>retro_nleu_1971
ATGGAGCGCCCAGATAAAGTGGCGCTGAACGCACCGCAGCCTCCTAAGTTCAGAAAAGAAAGCTCATTAGCATCTACACT
GAAGACGCTCCTGTTCTTCACAGCTTTAATGATCACTGTTCCTATCGGGTTATATTTCACAACTAAATCTTATATATTTG
GAGGCACCCTTGGGATGTCCAATAGGGACAGCTGTTTTTATGCTGCTATTGTTGCAGTGGTCGCCGGCCATGTG

Alignment

ORF - retro_nleu_1971 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.74 %
• Parental protein coverage: 77.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MERPDKAALNALQPPEFRNESSLASTLKTLLFFTALMITVPIGLYFTTKSYIFEGALGMSNRDSYFYAAI
          MERPDK.ALNA.QPP.FR.ESSLASTLKTLLFFTALMITVPIGLYFTTKSYIF.G.LGMSNRDS.FYAAI
Retrocopy MERPDKVALNAPQPPKFRKESSLASTLKTLLFFTALMITVPIGLYFTTKSYIFGGTLGMSNRDSCFYAAI

Parental  VAVVAVHV
          VAVVA.HV
Retrocopy VAVVAGHV

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_1971 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006296	1 retrocopy	retro_btau_1106,
Callithrix jacchus	ENSCJAG00000003916	1 retrocopy	retro_cjac_150,
Dasypus novemcinctus	ENSDNOG00000008426	1 retrocopy	retro_dnov_504,
Homo sapiens	ENSG00000160131	1 retrocopy	retro_hsap_3724,
Macaca mulatta	ENSMMUG00000009034	1 retrocopy	retro_mmul_1693,
Mus musculus	ENSMUSG00000073131	2 retrocopies	retro_mmus_116, retro_mmus_3675,
Nomascus leucogenys	ENSNLEG00000013711	1 retrocopy	retro_nleu_1971 ,
Oryctolagus cuniculus	ENSOCUG00000015201	1 retrocopy	retro_ocun_443,
Pongo abelii	ENSPPYG00000020820	1 retrocopy	retro_pabe_3133,
Rattus norvegicus	ENSRNOG00000049744	1 retrocopy	retro_rnor_2843,
Ictidomys tridecemlineatus	ENSSTOG00000011179	1 retrocopy	retro_itri_500,