RetrogeneDB ID: retro_nleu_2504

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397363.1:332590..332836(-)
• Located in intron of: ENSNLEG00000000027

Retrocopy information

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

Parental gene information

• Parental gene symbol: IER3IP1
• Ensembl ID: ENSNLEG00000011450
• Aliases: None
• Description: None

Sequence

>retro_nleu_2504
ATGGCCTTTACCTTGTACTCACTGCTGCAGGCAGCCCTGCTCTGTGTCAATGCCATTGCCATGCTGCACGAAGAGAGATT
CCTCAAGAACATTGGCTGGAGAATAGACCAGAGAATTGGTGGATTTGGGGAAAAGCCAGGAATTAAATCTCAGCTAGTGA
ACCGTATTCAATCTGTAACAACTGTGATGAGAATGCCATTGATAATAGTAAACTCAATTGCAATTGTGTTACTTTTATTA
TTTGGA

Alignment

ORF - retro_nleu_2504 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.59 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAFTVYSLLQAALLCVNAIAVLHEERFLKNIGWGTDQGIGGFGEEPGIKSQLMNLIRSVRTVMRVPLIIV
          MAFT.YSLLQAALLCVNAIA.LHEERFLKNIGW..DQ.IGGFGE.PGIKSQL.N.I.SV.TVMR.PLIIV
Retrocopy MAFTLYSLLQAALLCVNAIAMLHEERFLKNIGWRIDQRIGGFGEKPGIKSQLVNRIQSVTTVMRMPLIIV

Parental  NSIAIVLLLLFG
          NSIAIVLLLLFG
Retrocopy NSIAIVLLLLFG

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_2504 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 12 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000032961	1 retrocopy	retro_btau_13,
Callithrix jacchus	ENSCJAG00000004610	1 retrocopy	retro_cjac_3333,
Echinops telfairi	ENSETEG00000000303	1 retrocopy	retro_etel_1526,
Homo sapiens	ENSG00000134049	1 retrocopy	retro_hsap_1156,
Gorilla gorilla	ENSGGOG00000027939	1 retrocopy	retro_ggor_903,
Mus musculus	ENSMUSG00000090000	1 retrocopy	retro_mmus_150,
Nomascus leucogenys	ENSNLEG00000011450	1 retrocopy	retro_nleu_2504 ,
Otolemur garnettii	ENSOGAG00000016626	1 retrocopy	retro_ogar_2152,
Pongo abelii	ENSPPYG00000009141	3 retrocopies	retro_pabe_2850, retro_pabe_2851, retro_pabe_962,
Pan troglodytes	ENSPTRG00000010002	1 retrocopy	retro_ptro_791,
Tupaia belangeri	ENSTBEG00000001443	4 retrocopies	retro_tbel_1530, retro_tbel_2783, retro_tbel_3343, retro_tbel_3429,
Tursiops truncatus	ENSTTRG00000001019	1 retrocopy	retro_ttru_1930,