RetrogeneDB ID: retro_nleu_2351

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397347.1:3970263..3970953(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: E2F6
• Ensembl ID: ENSNLEG00000014134
• Aliases: None
• Description: None

Sequence

>retro_nleu_2351
ATGAGTCAGCAGCAGCCTGCAGGAAAGTTGACCGACCTGCCCATTAACCCGGCGGAGGAGACCGTTCGCCGCCGAGACGC
CATCAATGCGGAGTGCCCACTGCCGTCAACAGTAAGGATTAATTCCAAAGATGATGTACAACCTGAGTCTAAAAGAGAAA
CTGTAAATACGAAACCTCATAATAAGTCATCATTGGCTTGTACAACGCGAAAATTTATAGATATTCTCAAATCGGCTCCT
GGAGGTGTTCTTAACTTAAACCAGGTAGCAGCAAAACTGGCAGTGCACAGACGAAGAATATATGACATCATCAGTGTCTT
ACACGGAGTCAAGCTAATTGAAAAAATATCTGGCACCCATATTCGGTGGATTGGACCTGATTTTAATTCTGGAGCAACAC
TCGAAGAAAAGAAGCTAGAGGAGGAACTTTCTAAATTATCAGCAACAGAAGATGCTTTGGATAAGTTAATTGAAGATTGT
TCTCAGCAACTGTGCGAGTTAACAAATGACCAAGAATTGGGAAAACTAGCATATGTGACGCATAGAGACGTTCACAACTT
GGAACGCTTCCGGGAACAGACCATTTTTGGAGCTGAATTGCCAGTAGAAATCACACTGGAAATTCCAGTTTCTGAAGGCT
CTTTCTCATTACGTCTAAGTAACACCGACAGACCTGTTAATGCCTATTTG

Alignment

ORF - retro_nleu_2351 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.34 %
• Parental protein coverage: 83.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSQQRPARKLPSLLLDPTEETVRRRCRDPINVEGLLPSKIRINLEDNVQYVSMRKALKVKRPRFDVSLVY
          MSQQ.PA.KL..L...P.EETVRRR..D.IN.E..LPS..RIN..D.VQ..S.R.....K.P....SL..
Retrocopy MSQQQPAGKLTDLPINPAEETVRRR--DAINAECPLPSTVRINSKDDVQPESKRETVNTK-PHNKSSLAC

Parental  LTRKFMDLVRSAPGGILDLNKVATKLGVRKRRVYDITNVLDGIDLVEKKSKNHIRWIGSDLSNFGAVPQQ
          .TRKF.D...SAPGG.L.LN.VA.KL.V..RR.YDI..VL.G..L.EK.S..HIRWIG.D..N.GA....
Retrocopy TTRKFIDILKSAPGGVLNLNQVAAKLAVHRRRIYDIISVLHGVKLIEKISGTHIRWIGPDF-NSGATLEE

Parental  KKLQEELSDLSAMEDALDELIKDCAQQLFELTDDKENERLAYVTYQDIHSIQAFHEQIVIAVKAPAETRL
          KKL.EELS.LSA.EDALD.LI.DC.QQL.ELT.D.E...LAYVT..D.H....F.EQ.......P.E..L
Retrocopy KKLEEELSKLSATEDALDKLIEDCSQQLCELTNDQELGKLAYVTHRDVHNLERFREQTIFGAELPVEITL

Parental  DVPAPREDSITVHIRSTNGPIDVYL
          ..P...E.S.......T..P...YL
Retrocopy EIPV-SEGSFSLRLSNTDRPVNAYL

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_2351 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 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000048286	1 retrocopy	retro_btau_1820,
Callithrix jacchus	ENSCJAG00000006910	1 retrocopy	retro_cjac_178,
Dasypus novemcinctus	ENSDNOG00000000258	1 retrocopy	retro_dnov_187,
Homo sapiens	ENSG00000169016	4 retrocopies	retro_hsap_2542, retro_hsap_2547, retro_hsap_2572, retro_hsap_4906,
Macropus eugenii	ENSMEUG00000007957	4 retrocopies	retro_meug_1169, retro_meug_860, retro_meug_882, retro_meug_893,
Myotis lucifugus	ENSMLUG00000003384	1 retrocopy	retro_mluc_864,
Macaca mulatta	ENSMMUG00000023225	1 retrocopy	retro_mmul_87,
Nomascus leucogenys	ENSNLEG00000014134	1 retrocopy	retro_nleu_2351 ,
Pongo abelii	ENSPPYG00000012646	1 retrocopy	retro_pabe_1,
Pan troglodytes	ENSPTRG00000011661	2 retrocopies	retro_ptro_1484, retro_ptro_3272,
Ictidomys tridecemlineatus	ENSSTOG00000003316	1 retrocopy	retro_itri_135,