RetrogeneDB ID: retro_nleu_2411

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397353.1:3254664..3255214(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUS1
• Ensembl ID: ENSNLEG00000013457
• Aliases: None
• Description: None

Sequence

>retro_nleu_2411
GCTGCTGCCGCGCCACCTCTGCCGCGGTCCTAGAGCCGTTTGGCTTCACGCTCCGCAAGCAGGAACAGCCCTCACCACCG
GCACCCGCGCGGAGGGTAGTGCCTGGCCGCCGCCCACCACCGGATGCGCTAGCGAGCTGAAGGCCCTTCCCTGGAGAAGC
TGCCTGTGCGCATGGGCCTGTTGATCACCAGAGGTGGAGCAGGAACTCAGCTTCTCGGACATCGCGAGCCTCGTGGTGTG
GTGTATGGCCGTGGGCATCTCCTACATTAGCATCTACGACCACCAAGGTATTTTCAAAAGAAATAATTCCAGATTGATGG
ATGAAATTTTAAAACAACAGCAAGAACTTCTGGGCCTAGATTGTTCAAAATACTCACCAGAGTTTGCAAATAGTAACGAC
AAAGATGATCAAGTTTTAAATTGCCATTTGGCAGTGAAGGTGCTGTCCCTGGAAGATGGAAAAGCAGATATTGTGAGAGC
TGCTCAGGACTTTTGCCAGTGAGTAGCCCAGAAGCAAAAGAGACCCACAGATGTGGATGTAGATATATTA

Alignment

ORF - retro_nleu_2411 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.07 %
• Parental protein coverage: 62.46 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ASAAVLAPLGFTLRKPPAVGRNRRHHRHPRGGSCLAAAHHRMRWRADGRSLEKLPVHMGLVIT-EVEQEP
          A.AA...P............RN..HHRHPRGG.CLAAAHHRMR.RA.G.SLEKLPV.MGL.IT.EVEQE.
Retrocopy AAAAPPLPRS*SRLASRSASRNSPHHRHPRGG*CLAAAHHRMR*RAEGPSLEKLPVRMGLLIT>EVEQEL

Parental  SFSDIASLVVWCMAVGISYISVYDHQGIFKRNNSRLMDEILKQQQELLGLDCSKYSPEFPSSNDKDDQVL
          SFSDIASLVVWCMAVGISYIS.YDHQGIFKRNNSRLMDEILKQQQELLGLDCSKYSPEF..SNDKDDQVL
Retrocopy SFSDIASLVVWCMAVGISYISIYDHQGIFKRNNSRLMDEILKQQQELLGLDCSKYSPEFANSNDKDDQVL

Parental  NCHLAVKVLSPEDGKADIVRAAQDFCQLVAQKQKRPTDLDVDTL
          NCHLAVKVLS.EDGKADIVRAAQDFCQ.VAQKQKRPTD.DVD.L
Retrocopy NCHLAVKVLSLEDGKADIVRAAQDFCQ*VAQKQKRPTDVDVDIL

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_2411 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
Dasypus novemcinctus	ENSDNOG00000001780	1 retrocopy	retro_dnov_1639,
Erinaceus europaeus	ENSEEUG00000008948	1 retrocopy	retro_eeur_443,
Homo sapiens	ENSG00000153989	4 retrocopies	retro_hsap_1174, retro_hsap_1176, retro_hsap_1289, retro_hsap_4825,
Gorilla gorilla	ENSGGOG00000022321	4 retrocopies	retro_ggor_1012, retro_ggor_914, retro_ggor_915, retro_ggor_993,
Microcebus murinus	ENSMICG00000007831	1 retrocopy	retro_mmur_423,
Nomascus leucogenys	ENSNLEG00000013457	1 retrocopy	retro_nleu_2411 ,
Oryctolagus cuniculus	ENSOCUG00000011553	1 retrocopy	retro_ocun_1713,
Pongo abelii	ENSPPYG00000025886	1 retrocopy	retro_pabe_81,
Pan troglodytes	ENSPTRG00000018547	1 retrocopy	retro_ptro_808,
Tarsius syrichta	ENSTSYG00000003212	1 retrocopy	retro_tsyr_633,
Tursiops truncatus	ENSTTRG00000007352	2 retrocopies	retro_ttru_358, retro_ttru_684,