RetrogeneDB ID: retro_nleu_1083

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397280.1:10661726..10662126(-)
• Located in intron of: ENSNLEG00000016031

Retrocopy information

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

Parental gene information

• Parental gene symbol: NT5C
• Ensembl ID: ENSNLEG00000000601
• Aliases: None
• Description: None

Sequence

>retro_nleu_1083
GGCCTCGTGCGGGGCTTCAGCCGCCGCTTCTCAGGGAGCTGCATGTGACACTGCAGCAGCACCACAGCTTCCTGGCCTGG
AAGCAGTACTGCACCCTGCTGCCGGACCTGGTGGATAAACTGGCCCATGGGTGTGAAGCCCTAGGCTTTTCCCTAGTCTT
GGAGCCCAACCCCGGAGGGCCTTGCAAGAGATGAAGCACATGCAAAACACCAAGGTCTTCATACTGCACCAGCCCCTGCC
AAAGTATGACCACTGTGTGGGTGAGAAGCACTGCTGGGTAGAGCAGCACCTGGAGCCCCAGCTTGTGGGGAGAATTATGC
TGACAATGGACAAGACCGTGGTCTTTGGGGACTTGCTCACTGATGACAAGGATACCATTCGAGGCCAAGAGGAGAGGCCA

Alignment

ORF - retro_nleu_1083 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.14 %
• Parental protein coverage: 67.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GLLRGFRRRFP-EEPHVPLEQRRGFLAREQYRALRPDLADKVASVYEA-PGFFLDLEPIPGALDAVREMN
          GL.RGF.RRF...E.HV.L.Q...FLA..QY..L.PDL.DK.A...EA.P..F..L...P....A..EM.
Retrocopy GLVRGFSRRFS<RELHVTLQQHHSFLAWKQYCTLLPDLVDKLAHGCEA<PRLFPSLGAQPRR--ALQEMK

Parental  NLPDTEVFICTSPLLKYDHCVGEKYRWVEQHLGPQFVERIILTRDKTVVLGDLLIDDKDTIRGQEETP
          ....T.VFI...PL.KYDHCVGEK..WVEQHL.PQ.V.RI.LT.DKTVV.GDLL.DDKDTIRGQEE.P
Retrocopy HMQNTKVFILHQPLPKYDHCVGEKHCWVEQHLEPQLVGRIMLTMDKTVVFGDLLTDDKDTIRGQEERP

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_1083 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009175	1 retrocopy	retro_amel_1684,
Callithrix jacchus	ENSCJAG00000014578	1 retrocopy	retro_cjac_810,
Felis catus	ENSFCAG00000031408	2 retrocopies	retro_fcat_1016, retro_fcat_606,
Homo sapiens	ENSG00000125458	2 retrocopies	retro_hsap_1441, retro_hsap_1442,
Gorilla gorilla	ENSGGOG00000004740	2 retrocopies	retro_ggor_1061, retro_ggor_1109,
Microcebus murinus	ENSMICG00000017488	1 retrocopy	retro_mmur_1088,
Mustela putorius furo	ENSMPUG00000013985	1 retrocopy	retro_mputfur_1352,
Nomascus leucogenys	ENSNLEG00000000601	2 retrocopies	retro_nleu_1083 , retro_nleu_1416,
Pongo abelii	ENSPPYG00000008619	1 retrocopy	retro_pabe_1195,