RetrogeneDB ID: retro_nleu_563

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397267.1:9556531..9556876(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDT15
• Ensembl ID: ENSNLEG00000002957
• Aliases: None
• Description: None

Sequence

>retro_nleu_563
ACCAGCTGCAGGCATCGCGCTGTGTCCTTCTGGGGAAGAGAAAGGGGTCGTCTGGAGCCAGCAGTTTCCAACTTCCTGGG
GGTCATTTGGAGTTCGGTGAGAGCTGGGAAGAATGCACTCAAAAGGATGCCTGGAAAGAAGCAGCTCTTCACCTGAAAAA
TGTTTGCTTTGCCTCAGTTGAGAATTCTTTCATTAAGAAAGAGAATTATCATGTTACCATATTAACCAAAGGAGAGGTGG
ACATGACTCATGATTCAGAACCACAGAATGTGGAGCCTGAAAAAAAATGAAAGTTGGGACTGGGTTCCTTGGGAAGAATT
TCCTCTACTAGATCAGCTTTTCTGG

Alignment

ORF - retro_nleu_563 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.81 %
• Parental protein coverage: 70.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TSCKH-PRCVLLGKRKGSVGAGSFQLPGGHLEFGETWEECAQRETWEEAALHLKNVRFASVVNSFIEKEN
          TSC.H..RCVLLGKRKGS.GA.SFQLPGGHLEFGE.WEEC.Q...W.EAALHLKNV.FASV.NSFI.KEN
Retrocopy TSCRH<SRCVLLGKRKGSSGASSFQLPGGHLEFGESWEECTQKDAWKEAALHLKNVCFASVENSFIKKEN

Parental  YHYVTILMKGEVDVTHDSEPKNVEP-EKNESWEWVPWEELPPLDQLFW
          YH.VTIL.KGEVD.THDSEP.NVEP....ESW.WVPWEE.P.LDQLFW
Retrocopy YH-VTILTKGEVDMTHDSEPQNVEP>XXXESWDWVPWEEFPLLDQLFW

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_563 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 10 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019501	1 retrocopy	retro_btau_559,
Callithrix jacchus	ENSCJAG00000009274	1 retrocopy	retro_cjac_1497,
Homo sapiens	ENSG00000136159	2 retrocopies	retro_hsap_1822, retro_hsap_4063,
Gorilla gorilla	ENSGGOG00000008232	3 retrocopies	retro_ggor_2171, retro_ggor_2257, retro_ggor_2729,
Microcebus murinus	ENSMICG00000009583	1 retrocopy	retro_mmur_962,
Mus musculus	ENSMUSG00000033405	1 retrocopy	retro_mmus_1923,
Nomascus leucogenys	ENSNLEG00000002957	2 retrocopies	retro_nleu_2878, retro_nleu_563 ,
Pongo abelii	ENSPPYG00000005353	2 retrocopies	retro_pabe_1490, retro_pabe_3337,
Pan troglodytes	ENSPTRG00000042329	1 retrocopy	retro_ptro_82,
Tarsius syrichta	ENSTSYG00000006960	1 retrocopy	retro_tsyr_146,