RetrogeneDB ID: retro_nleu_1416

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397292.1:7914564..7914963(-)
• Located in intron of: ENSNLEG00000003134

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_1416
GGCCTCCTGCGGGGCTTCAGCCGCCGCTTCTCAGGGAGCTGCATGTGACACTGCAGCAGCACCACAGCTTCCTGGCCTGG
AAGCAGTACCGCACCCTGCTGCCGGACCTGGTGGATAAACTGGCCCATGGGTGTGAAGCCCTAGGCTTTTCCCTAGTCTT
GGAGCCCAACCCCGGAGGGCCTTGCAAGAGATGAAGCACATGCAAAACACCGAGGTCTTCATACTGCACCAGCCCCTGCC
AAAGTATGACCACTGTGTGGGTGAGAAGCACTGCTGGGTAGAGCAGCACCTGGAGCCCCAGCTTGTGGGGAGAATTATGC
TGACAATGGAGAAGACCATGGTCTTGGGGACTTGCTCACTGATGAGAAGGATACCATTCGAGGCCAAGAGGAGAGGCCA

Alignment

ORF - retro_nleu_1416 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.43 %
• Parental protein coverage: 67.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GLLRGFRRRFP-EEPHVPLEQRRGFLAREQYRALRPDLADKVASVYEA-PGFFLDLEPIPGALDAVREMN
          GLLRGF.RRF...E.HV.L.Q...FLA..QYR.L.PDL.DK.A...EA.P..F..L...P....A..EM.
Retrocopy GLLRGFSRRFS<RELHVTLQQHHSFLAWKQYRTLLPDLVDKLAHGCEA<PRLFPSLGAQPRR--ALQEMK

Parental  NLPDTEVFICTSPLLKYDHCVGEKYRWVEQHLGPQFVERIILTRDKTVV-LGDLLIDDKDTIRGQEETP
          ....TEVFI...PL.KYDHCVGEK..WVEQHL.PQ.V.RI.LT..KT.V.LGDLL.D.KDTIRGQEE.P
Retrocopy HMQNTEVFILHQPLPKYDHCVGEKHCWVEQHLEPQLVGRIMLTMEKTMV<LGDLLTDEKDTIRGQEERP

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_1416 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,