RetrogeneDB ID: retro_nleu_631

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397268.1:46013512..46013958(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PERP
• Ensembl ID: ENSNLEG00000014930
• Aliases: None
• Description: None

Sequence

>retro_nleu_631
CAGCTCCATCGCCTTCACCATCGTGGCAATGCCCAGCATGGCGGCAGCACGCCCCCCCAGGATGGGTGCCAGAGCCTCGT
GGAGTACGTAGGAGGAAGAGCAGCCGCTGCCATGCTCTTCTGTGGCTGTATCATGCTGGTGACCTGTTTCATCCCCACCT
TCTTTGTCCTCTGTGCACCCCCGATGCTAGTCCTCCTAAGAGTGAGTTGGAGGCCTCCCTACCCTGGCTGCTGTGTTGCA
GATCATCTCCCTGGTAATTAACCCTGTGAAGTATACCCATACCTTCAATCTTCATGCCAACCCAGCCATCACATCACATC
TGTCCCTGGACATGTGGCTTCCAGTGGGTGGCCACAATCATCCTGATTGGCTGTCATTTCTCCTTCTGCTGCGGCCCGAA
GGACAAAGACGACCTCCTGGGAGGCGCCAAGCCCAGGTACTTCCAC

Alignment

ORF - retro_nleu_631 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.33 %
• Parental protein coverage: 77.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QTSSLWWKCSQEGGGSGSSEEGCQSLMEYAWGRAAAAMLFCGFIILVICFILSFFALCGPQMLVFLRV-I
          Q...L........GGS.....GCQSL.EY..GRAAAAMLFCG.I.LV.CFI..FF.LC.P.MLV.LRV..
Retrocopy QLHRLHHRGNAQHGGSTPPQDGCQSLVEYVGGRAAAAMLFCGCIMLVTCFIPTFFVLCAPPMLVLLRV>V

Parental  GGLLALAAVFQIISLVIYPVKYTQTFNLHANPAVT-YIYNWAYGFGWAATIILIGCAFFFCCLPNYEDDL
          GGL..LAAV.QIISLVI.PVKYT.TFNLHANPA.T..I..W..GF.W.ATIILIGC.F.FCC.P...DDL
Retrocopy GGLPTLAAVLQIISLVINPVKYTHTFNLHANPAIT>HICPWTCGFQWVATIILIGCHFSFCCGPKDKDDL

Parental  LGNAKPRYFY
          LG.AKPRYF.
Retrocopy LGGAKPRYFH

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_631 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 12 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020097	1 retrocopy	retro_btau_165,
Callithrix jacchus	ENSCJAG00000019024	1 retrocopy	retro_cjac_3992,
Homo sapiens	ENSG00000112378	2 retrocopies	retro_hsap_1523, retro_hsap_2901,
Gorilla gorilla	ENSGGOG00000028340	1 retrocopy	retro_ggor_1165,
Macropus eugenii	ENSMEUG00000004872	1 retrocopy	retro_meug_845,
Microcebus murinus	ENSMICG00000013979	1 retrocopy	retro_mmur_353,
Myotis lucifugus	ENSMLUG00000001473	1 retrocopy	retro_mluc_2287,
Macaca mulatta	ENSMMUG00000000997	1 retrocopy	retro_mmul_2156,
Nomascus leucogenys	ENSNLEG00000014930	2 retrocopies	retro_nleu_1934, retro_nleu_631 ,
Oryctolagus cuniculus	ENSOCUG00000004238	1 retrocopy	retro_ocun_170,
Otolemur garnettii	ENSOGAG00000011669	1 retrocopy	retro_ogar_631,
Pongo abelii	ENSPPYG00000017043	3 retrocopies	retro_pabe_1267, retro_pabe_2400, retro_pabe_2416,