RetrogeneDB ID: retro_nleu_1527

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397297.1:22760379..22760811(-)
• Located in intron of: ENSNLEG00000016018

Retrocopy information

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

Parental gene information

• Parental gene symbol: C7ORF44
• Ensembl ID: ENSNLEG00000003316
• Aliases: None
• Description: None

Sequence

>retro_nleu_1527
TGGCAAAAGTATCCAGGAAGCAGGATGCCAGTGCCTCAAGGAAAAAATGGTCCTTTTCGGCAATGTGTTCGGTACTGGGG
GCTTGGCCCTTGTGTATTATCTCATACAAAAGACGTTTTCCAGGGCTTTGTGTTACCAGTTGGCATTGGAGCGGGTGCAT
AGCCATCCCAAGGCACAGGGAGCTCTGGGCCCTCCTCTCAACATTCACTGTCTCAAACTCACCAACAAGCACAACTTTGT
GGACATTGCTGATGCCAAGTTGAAGATTCCTAGCTCTGGATCCAAGTCAGAGGGCCATCTCCACGTCAGCTCATCCAGAA
GTGCCCCTTTCAGAGGTGGCACCTTGATGAGGTCTTCCTAGAGCCCAAGGATGGCCAGCAGATTCCCGTGTTCAAGGTCA
GTGGGGAGAATGGTGAAGAAGTGAAAAAGGAG

Alignment

ORF - retro_nleu_1527 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.18 %
• Parental protein coverage: 98.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  WQKYAGSRRSMPLGAR-ILFHSVVYAGGFAIVYYLIQKFHSRALYYKLAVEQLQSHPEAQEALGTPLNIH
          WQKY.GSR...P.G....LF..V...GG.A.VYYLIQK..SRAL.Y.LA.E...SHP.AQ.ALG.PLNIH
Retrocopy WQKYPGSRMPVPQGKN>VLFGNVFGTGGLALVYYLIQKTFSRALCYQLALERVHSHPKAQGALGPPLNIH

Parental  YLKLIDRENFVDIADAQLKIPVSGSKSEGLLYVHSSRSG-PFQRWHLDKVFLELKDGQRIPVFKLSGENG
          .LKL....NFVDIADA.LKIP.SGSKSEG.L.V.SSRS..PFQRWHLD.VFLE.KDGQ.IPVFK.SGENG
Retrocopy CLKLTNKHNFVDIADAKLKIPSSGSKSEGHLHVSSSRSA<PFQRWHLDEVFLEPKDGQQIPVFKVSGENG

Parental  DEGKKE
          .E.KKE
Retrocopy EEVKKE

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_1527 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009377	1 retrocopy	retro_amel_1871,
Canis familiaris	ENSCAFG00000031110	1 retrocopy	retro_cfam_2115,
Callithrix jacchus	ENSCJAG00000007826	1 retrocopy	retro_cjac_656,
Homo sapiens	ENSG00000106603	1 retrocopy	retro_hsap_2595,
Gorilla gorilla	ENSGGOG00000034928	1 retrocopy	retro_ggor_1624,
Macaca mulatta	ENSMMUG00000019023	1 retrocopy	retro_mmul_653,
Mustela putorius furo	ENSMPUG00000018149	1 retrocopy	retro_mputfur_1572,
Nomascus leucogenys	ENSNLEG00000003316	1 retrocopy	retro_nleu_1527 ,
Pongo abelii	ENSPPYG00000017606	1 retrocopy	retro_pabe_1914,
Pan troglodytes	ENSPTRG00000019125	1 retrocopy	retro_ptro_1520,