RetrogeneDB ID: retro_nleu_2890

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397466.1:1906560..1906846(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FXYD6
• Ensembl ID: ENSNLEG00000007348
• Aliases: None
• Description: None

Sequence

>retro_nleu_2890
ATGGAGGTAGTGCTGGTCTTTCTATGCAGCCTGTTGGCCCACATTGTCCTGGCCAGTGCAGCTGAGAAGGAAAAGGAAAT
TGACCCTTTTCATTATGACTACCAGATCCTGAGGATTAGGGGGTTGGTATGTGCTGTGTTCCTCTTCTCCACTGGGATCC
TCCTTATCCTAGGTTGCAGATGCAAGTGCAGTTTCAATCAGAAGCCCGGGACCCCCAGGAGAGGAGGAAGCCCAGGTGGA
GAACCTCATCACTGCAAATGCAACAAAGCTCCAGAAAGCAGAGAGC

Alignment

ORF - retro_nleu_2890 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.25 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MELVLVFLCSLLAPTVLASAAEKEKEMDPFHYDYQTLRIGGLVFAVVLFSVGILLILSRRCKCSFNQKPR
          ME.VLVFLCSLLA..VLASAAEKEKE.DPFHYDYQ.LRI.GLV.AV.LFS.GILLIL..RCKCSFNQKP.
Retrocopy MEVVLVFLCSLLAHIVLASAAEKEKEIDPFHYDYQILRIRGLVCAVFLFSTGILLILGCRCKCSFNQKPG

Parental  A-PGDEEAQVENLITANATEPQKAEN
          ..PG.EEAQVENLITANAT..QKAE.
Retrocopy T>PGEEEAQVENLITANATKLQKAES

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_2890 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 8 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013044	1 retrocopy	retro_cjac_2098,
Erinaceus europaeus	ENSEEUG00000011989	1 retrocopy	retro_eeur_382,
Homo sapiens	ENSG00000137726	2 retrocopies	retro_hsap_562, retro_hsap_662,
Gorilla gorilla	ENSGGOG00000006473	2 retrocopies	retro_ggor_507, retro_ggor_574,
Macaca mulatta	ENSMMUG00000007617	2 retrocopies	retro_mmul_2439, retro_mmul_2440,
Nomascus leucogenys	ENSNLEG00000007348	2 retrocopies	retro_nleu_1982, retro_nleu_2890 ,
Pongo abelii	ENSPPYG00000003918	3 retrocopies	retro_pabe_583, retro_pabe_644, retro_pabe_648,
Pan troglodytes	ENSPTRG00000004329	3 retrocopies	retro_ptro_3127, retro_ptro_421, retro_ptro_481,