RetrogeneDB ID: retro_nleu_2125

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397330.1:3331050..3332553(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ABCE1
• Ensembl ID: ENSNLEG00000005460
• Aliases: None
• Description: None

Sequence

>retro_nleu_2125
CTGCCTATCCCTCGTCCAGGTAAAGTTTTGGGATTAGTTGGAACTAATGGTATTGGAAAGTCAACAGTTTTAAAAATTTT
TGGCAGGAAAACAAAAGCCAAACCTTGGAAAGTACGATGATCCTCCTGACTGGCAAGAGATTTTGACTTATTTCCGTGGA
TCTGAATTACAGAATTACTTTACCAAGTTTCTAGAAGAGGACCTAAAAGCCATCATCAGACCTCAATATGTAGACCAGAT
TCCTAAGCCTGCAAAGGTGACAGTGGGATCTATTTTGGCCTGAAAAGATGAAACAAAGACACAGGCAATTATATGTCAGC
AGCTTGAATTAACCCATCTAACAGAACAAAATGTTGAAGATCTTTCAGGAGGAGAGTTGCAGAGATTTGCCTGTGCTGTC
GTTTGCATACAGAAAGCTGATATTTTCATGTTTGATGAGACTTCTAGTTACCTAGATGTCAAGCAGCGTTTAAAGCCTGC
TGTTACTATACAATCTCTGATAAATCCAGATAGATATATCATTGTAGTGGAATATGATCTAAGTGTATTAGACTATCTCT
CTGACTTCATCTGCTGTTTATACAGTGTACCAAGTGCCTATGGAGTTGTCACTGTGCCTTTTAGTGTAAGAAAGGGCATA
AACATTTTTTTGGATGGCTATGTTCCAACAGAAAACTTGAGATTCAGAGATGCATCACTTGTTTTTAAAGTGGCTGAGAC
AGCAAATGAAGAAGTCAAAATGATGTGTATGTATAAATATCCAGGAATGAAGAAAAAATGGGAGAGTTTGAGCTAGCAAT
TGTAGCTGGAGAGTTTACAGATTCTGAAATCATGGTGATGAGGCTGGGGGAAAATGGAATGGGTAAAACGACATTTATCA
GAATGCTTCCTGGAAGACTTAAACCTGATGAAGGAGAAGTACCAGTTCTAAATGTCAGTTATAAGCTACAGAAAATTAGT
CCCAAATCAAGTGGAAGTGTTTGCCAGTTACTACATGAAAAGATAAGAGATGCTTATACACATCCACAATTTGTGACTAA
TGTAATGAAGCCTCTGCAAATTGAAAACACCATCAATCAAGAGGTGCAGACATCATCGGGTGGTGAACTACAGCGAGTAG
CTTTAGCCCTTTGTTTGGGCAAACCTGCTGATGTCCATTTAATTGATGAACCATCTGCATATTTGGATTCTGAGCAAAGA
TTGGTGGCAGCTCGAGTTGTCAAACGTTTCATACTTCATGCAAAAAAGACAGCCTTTGTTGTGGAACATGACTTCATCAT
GGCCACCTATCTAGTGGATCATGTCATCATTCTTGATGGTGTCCTATCTACTAAGAACACAGTTGCAAACAGTCCTCAAA
CCCCTTTGGCTGGCATGAATACATTTTAGTCTCAGCTTGAAACTACATTCATAAGAGATTCCAACCACTATAGACCACGA
ATAAATAAATTTAATTCAATTAAGGATGTAGAACAAAAGAAGAGTGGAAACTCCTTTTTCTTG

Alignment

ORF - retro_nleu_2125 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.31 %
• Parental protein coverage: 83.64 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LPIPRPGEVLGLVGTNGIGKSTALKI-LAGKQKPNLGKYDDPPDWQEILTYFRGSELQNYFTKILEDDLK
          LPIPRPG.VLGLVGTNGIGKST.LKI.LAGKQKPNLGKYDDPPDWQEILTYFRGSELQNYFTK.LE.DLK
Retrocopy LPIPRPGKVLGLVGTNGIGKSTVLKI>LAGKQKPNLGKYDDPPDWQEILTYFRGSELQNYFTKFLEEDLK

Parental  AIIKPQYVDQIPKAAKGTVGSILDRKDETKTQAVVCQQLDLTHLKERNVEDLSGGELQRFACAVVCIQKA
          AII.PQYVDQIPK.AK.TVGSIL..KDETKTQA..CQQL.LTHL.E.NVEDLSGGELQRFACAVVCIQKA
Retrocopy AIIRPQYVDQIPKPAKVTVGSILA*KDETKTQAIICQQLELTHLTEQNVEDLSGGELQRFACAVVCIQKA

Parental  DIFMFDEPSSYLDVKQRLKAAITIRSLINPDRYIIVVEHDLSVLDYLSDFICCLYGVPSAYGVVTMPFSV
          DIFMFDE.SSYLDVKQRLK.A.TI.SLINPDRYIIVVE.DLSVLDYLSDFICCLY.VPSAYGVVT.PFSV
Retrocopy DIFMFDETSSYLDVKQRLKPAVTIQSLINPDRYIIVVEYDLSVLDYLSDFICCLYSVPSAYGVVTVPFSV

Parental  REGINIFLDGYVPTENLRFRDASLVFKVAETANEEEVKKMCMYKYPGMKK-KMGEFELAIVAGEFTDSEI
          R.GINIFLDGYVPTENLRFRDASLVFKVAETAN.EEVK.MCMYKYPGMKK.KMGEFELAIVAGEFTDSEI
Retrocopy RKGINIFLDGYVPTENLRFRDASLVFKVAETAN-EEVKMMCMYKYPGMKK<KMGEFELAIVAGEFTDSEI

Parental  MVM-LGENGTGKTTFIRMLAGRLKPDEGGEVPVLNVSYKPQKISPKSTGSVRQLLHEKIRDAYTHPQFVT
          MVM.LGENG.GKTTFIRML.GRLKPDE.GEVPVLNVSYK.QKISPKS.GSV.QLLHEKIRDAYTHPQFVT
Retrocopy MVMRLGENGMGKTTFIRMLPGRLKPDE-GEVPVLNVSYKLQKISPKSSGSVCQLLHEKIRDAYTHPQFVT

Parental  DVMKPLQIENIIDQEVQTLSGGELQRVALALCLGKPADVYLIDEPSAYLDSEQRLMAARVVKRFILHAKK
          .VMKPLQIEN.I.QEVQT.SGGELQRVALALCLGKPADV.LIDEPSAYLDSEQRL.AARVVKRFILHAKK
Retrocopy NVMKPLQIENTINQEVQTSSGGELQRVALALCLGKPADVHLIDEPSAYLDSEQRLVAARVVKRFILHAKK

Parental  TAFVVEHDFIMATYLADRVIVFDGVPS-KNTVANSPQTLLAGMNKFLSQLEITFRRDPNNYRPRINKLNS
          TAFVVEHDFIMATYL.D.VI..DGV.S.KNTVANSPQT.LAGMN.F.SQLE.TF.RD.N.YRPRINK.NS
Retrocopy TAFVVEHDFIMATYLVDHVIILDGVLSTKNTVANSPQTPLAGMNTF*SQLETTFIRDSNHYRPRINKFNS

Parental  IKDVEQKKSGNYFFL
          IKDVEQKKSGN.FFL
Retrocopy IKDVEQKKSGNSFFL

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_2125 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004534	1 retrocopy	retro_chof_1280,
Cavia porcellus	ENSCPOG00000007367	1 retrocopy	retro_cpor_289,
Homo sapiens	ENSG00000164163	1 retrocopy	retro_hsap_3826,
Macaca mulatta	ENSMMUG00000004433	1 retrocopy	retro_mmul_1628,
Mus musculus	ENSMUSG00000058355	1 retrocopy	retro_mmus_1503,
Nomascus leucogenys	ENSNLEG00000005460	1 retrocopy	retro_nleu_2125 ,
Oryctolagus cuniculus	ENSOCUG00000001821	2 retrocopies	retro_ocun_1925, retro_ocun_668,
Procavia capensis	ENSPCAG00000006183	1 retrocopy	retro_pcap_90,
Pongo abelii	ENSPPYG00000015097	1 retrocopy	retro_pabe_3067,
Pan troglodytes	ENSPTRG00000016481	1 retrocopy	retro_ptro_2603,