RetrogeneDB ID: retro_nleu_1928

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397316.1:4711358..4711851(-)
• Located in intron of: ENSNLEG00000008674

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL22
• Ensembl ID: ENSNLEG00000016692
• Aliases: None
• Description: None

Sequence

>retro_nleu_1928
GGTCTCCTTCATCTCAGCGTTTTACCCCAATCCCAGGCCCACACAAGTGCTTCTCTTGACACTTCTCAAAAATGGGAGAA
GAAGAATAAAACTGTTTATCCTCCACAACTGCCTGCAGAACCTCAGAGACCAGCAGAAATCTACCAATACCAAAGAAAAC
TAAAAGACAGCAAAGACAAGATGTTGTATTTGGGAAAATTGGTAGGAGAAATGTCTACTGACCAGGCCTAGCTCAACTGG
GATTCAGTGACAAAAAGGGACCCAAATCATTAGAGGTTCTCTTAGAAGCACAAGATGTGGCAGTGAAAGATCACAATGTG
GAATTCAGATCCGGTTTATATATAAACTGAGTCCACCTCAGGGGGAGGCCAGTGCCTGACAGGTTTCTGCTACCAAAGTA
GAGGTTGCTTTGGGATCATGAAGGTTACTGCCATTCTTTTATGAAGCTGGTGGAAGGGCCTCCCCACCTCCATGTGAGGC
ACCCAAGATGGCG

Alignment

ORF - retro_nleu_1928 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.76 %
• Parental protein coverage: 80.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GKLALGVLPQSYIHTSASLDISRKWEKKNKIVYPPQLPGEPRRPAEIYHCRRQIKYSKDKMWYLAKLIRG
          G.L.L.VLPQS..HTSASLD.S.KWEKKNK.VYPPQLP.EP.RPAEIY...R..K.SKDKM.YL.KL...
Retrocopy GLLHLSVLPQSQAHTSASLDTSQKWEKKNKTVYPPQLPAEPQRPAEIYQYQRKLKDSKDKMLYLGKLVGE

Parental  MSIDQA-LAQLEFNDKKGAKIIKEVLLEAQDMAVRDHNVEFRSNLYI-AESTSGRGQCLKRIRYHGRGRF
          MS.DQA.LAQL.F.DKKG.K...EVLLEAQD.AV.DHNVEFRS.LYI..ESTSG.GQCL....Y..RG.F
Retrocopy MSTDQA<LAQLGFSDKKGPKSL-EVLLEAQDVAVKDHNVEFRSGLYI>TESTSGGGQCLTGFCYQSRGCF

Parental  GIMEKV-YCHYFVKLVEGPP-PPP-EPPKTA
          GIM.KV.YCH.F.KLVEGPP.PPP.E.PK.A
Retrocopy GIM-KV<YCHSFMKLVEGPP<PPPCEAPKMA

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_1928 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003875	1 retrocopy	retro_acar_88,
Callithrix jacchus	ENSCJAG00000007325	2 retrocopies	retro_cjac_2187, retro_cjac_2558,
Homo sapiens	ENSG00000082515	1 retrocopy	retro_hsap_3041,
Gorilla gorilla	ENSGGOG00000010232	1 retrocopy	retro_ggor_2095,
Mus musculus	ENSMUSG00000020514	1 retrocopy	retro_mmus_1294,
Nomascus leucogenys	ENSNLEG00000016692	1 retrocopy	retro_nleu_1928 ,
Pongo abelii	ENSPPYG00000015979	1 retrocopy	retro_pabe_2436,
Pan troglodytes	ENSPTRG00000017453	1 retrocopy	retro_ptro_1997,