RetrogeneDB ID: retro_nleu_542

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397267.1:16022886..16023097(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C14ORF2
• Ensembl ID: ENSNLEG00000016248
• Aliases: None
• Description: None

Sequence

>retro_nleu_542
GGGCTCAGGTGCAGCCTGAGTTGTTGGTTCTGCACTGAGATGTTCCAAAGCATTATTAAAAAATGTTTGGATCCCCATGA
AGCCCTCCTATACCCAAGCATGCCAGGAGATTTGGGTAGGAATGGGGTTGATAAGCCTTATTGCTTATAAAATCAGAAGT
GCTGATAAAAGAAGTAAAGCTTAGAAAGCATTGAGTCTTGCACCCGCTCAT

Alignment

ORF - retro_nleu_542 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.79 %
• Parental protein coverage: 93.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GTRGSDISHFQCQMLQSII-KNVWIPMKPYYTQVYQEIWIGMGLMGFIVYKIRAADKRSKALKASAPAPG
          G.R.S....F...M.QSII.KNVWIPMKP.YTQ..QEIW.GMGL...I.YKIR.ADKRSKA.KA...AP.
Retrocopy GLRCSLSCWFCTEMFQSII>KNVWIPMKPSYTQACQEIWVGMGLISLIAYKIRSADKRSKA*KALSLAPA

Parental  H
          H
Retrocopy H

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_542 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 41 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000026886	4 retrocopies	retro_btau_1496, retro_btau_1629, retro_btau_818, retro_btau_925,
Homo sapiens	ENSG00000156411	1 retrocopy	retro_hsap_3993,
Mustela putorius furo	ENSMPUG00000002297	9 retrocopies	retro_mputfur_1068, retro_mputfur_1180, retro_mputfur_1395, retro_mputfur_1456, retro_mputfur_1500, retro_mputfur_1635, retro_mputfur_243, retro_mputfur_432, retro_mputfur_981,
Nomascus leucogenys	ENSNLEG00000016248	1 retrocopy	retro_nleu_542 ,
Pan troglodytes	ENSPTRG00000006764	1 retrocopy	retro_ptro_2710,
Pteropus vampyrus	ENSPVAG00000011548	3 retrocopies	retro_pvam_39, retro_pvam_504, retro_pvam_938,
Rattus norvegicus	ENSRNOG00000043144	2 retrocopies	retro_rnor_116, retro_rnor_14,
Sus scrofa	ENSSSCG00000002550	5 retrocopies	retro_sscr_151, retro_sscr_483, retro_sscr_484, retro_sscr_517, retro_sscr_732,
Tupaia belangeri	ENSTBEG00000008996	3 retrocopies	retro_tbel_1138, retro_tbel_3782, retro_tbel_3854,
Tursiops truncatus	ENSTTRG00000006404	5 retrocopies	retro_ttru_1417, retro_ttru_1457, retro_ttru_1722, retro_ttru_1924, retro_ttru_271,
Vicugna pacos	ENSVPAG00000001249	7 retrocopies	retro_vpac_152, retro_vpac_347, retro_vpac_517, retro_vpac_526, retro_vpac_545, retro_vpac_577, retro_vpac_610,