RetrogeneDB ID: retro_nleu_1560

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397299.1:2818855..2819103(-)
• Located in intron of: ENSNLEG00000013829

Retrocopy information

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

Parental gene information

• Parental gene symbol: GABARAPL2
• Ensembl ID: ENSNLEG00000013048
• Aliases: None
• Description: None

Sequence

>retro_nleu_1560
GTGAAGTGGGTGTTCAGAGAGGATCGCTCCTGGAACACAGGTGAGTGGAGTCCCTTAAGATCCGCGCAAAACAGCCCGGC
CGGTTCCAGCGATTATGAAAAAGTCCAGGCTCTCAGACCGCTGACCCTGATAAGTAGAAGTCCTTGGTGCCACCTGGTAT
TCTAGTGGCTCAGTCCATGTGCATCATCACGAGTAGGATCCAGCTTCCTGCTGAAAAGGCCTCTGTCCCGTTTGTGGATA
AGACAGTG

Alignment

ORF - retro_nleu_1560 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.77 %
• Parental protein coverage: 71.79 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MKWMFKEDHS-LEHRCVESAKIRAKYPDR-VPVIV-EKVS-GSQIVDIDKRKYLVPSDITVAQFMWIIRK
          .KW.F.ED.S.LEHR.VES.KIRAK.P.R.VP.I..EKV..GSQ..D.DK.K.LVP..I.VAQ.M.II..
Retrocopy VKWVFREDRS<LEHR*VESLKIRAKQPGR<VPAIM<EKVQ<GSQTADPDK*KSLVPPGILVAQSMCIITS

Parental  RIQLPSEKAIFLFVDKTV
          RIQLP.EKA...FVDKTV
Retrocopy RIQLPAEKASVPFVDKTV

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_1560 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 14 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005453	2 retrocopies	retro_amel_1054, retro_amel_1238,
Callithrix jacchus	ENSCJAG00000014253	1 retrocopy	retro_cjac_146,
Dasypus novemcinctus	ENSDNOG00000002240	2 retrocopies	retro_dnov_1755, retro_dnov_2332,
Homo sapiens	ENSG00000034713	1 retrocopy	retro_hsap_4115,
Gorilla gorilla	ENSGGOG00000012299	2 retrocopies	retro_ggor_2761, retro_ggor_342,
Loxodonta africana	ENSLAFG00000017065	2 retrocopies	retro_lafr_234, retro_lafr_543,
Myotis lucifugus	ENSMLUG00000015112	1 retrocopy	retro_mluc_1207,
Macaca mulatta	ENSMMUG00000005759	2 retrocopies	retro_mmul_2369, retro_mmul_540,
Nomascus leucogenys	ENSNLEG00000008049	2 retrocopies	retro_nleu_1670, retro_nleu_4,
Nomascus leucogenys	ENSNLEG00000011511	4 retrocopies	retro_nleu_1032, retro_nleu_1467, retro_nleu_2392, retro_nleu_931,
Nomascus leucogenys	ENSNLEG00000013048	2 retrocopies	retro_nleu_1560 , retro_nleu_580,
Pongo abelii	ENSPPYG00000007565	2 retrocopies	retro_pabe_3368, retro_pabe_372,
Pan troglodytes	ENSPTRG00000008362	2 retrocopies	retro_ptro_250, retro_ptro_2794,
Rattus norvegicus	ENSRNOG00000019425	1 retrocopy	retro_rnor_57,