RetrogeneDB ID: retro_nleu_1433

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397293.1:16982364..16982937(+)
• Located in intron of: ENSNLEG00000003443

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6ORF203
• Ensembl ID: ENSNLEG00000013450
• Aliases: None
• Description: None

Sequence

>retro_nleu_1433
ATGGCTATGATTAGTGTCAAATTGCCTGCCATTGTTTTAAGAAAGCCAGATACCTCGATTGGACTCTGGGGTGTTCTCCG
AGGGACACCGTCATCACACAAACTCTGTACTTCCTGGAATCGATACAGCACTAAGTTACATGCACCAAATTATAAAAGAC
TTATCCATAATATTTTCTCACTGAAATTCTCAGGGCTTTTAATATCTCCAGAATATATTTTTCCATTTTCCATAAGACTC
AGAAGTAATAAAAGCTCTAATAAATCTACTACAAAGTCACCGCAAAAAGTAGAAGATGAAGAGGACTCTGATGAAGAAAG
CGATCATGATGAGATGAGTGAGCAGGAAGAGGAGCTTGAGGATGATCCTACTATAGTCAAAGACTATCAAGACGTGGAAA
AAGCAATGCAGTCTTTTTGGTACGATGATGTCCTGAAGACAGGCCTAGATACTGGGAGAAACAAAGTGGAAGATGCGTTC
TACAAAAGTGAACTCAGGCTGAATGGGGAAAAGTTATGGAAGAAAAACAGAACGGTCAAAGTGGGAGATACACTGGATCT
TCTCATTGGAGAT

Alignment

ORF - retro_nleu_1433 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.51 %
• Parental protein coverage: 80.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAMASVKLLAGVLRKPDAWIGLWGVLRGTPSSYKLCTSWNRYLYFSSTKLRAPNYKTLFYNIFSLRLPGL
          MAM.SVKL.A.VLRKPD..IGLWGVLRGTPSS.KLCTSWNRY....STKL.APNYK.L..NIFSL...GL
Retrocopy MAMISVKLPAIVLRKPDTSIGLWGVLRGTPSSHKLCTSWNRY----STKLHAPNYKRLIHNIFSLKFSGL

Parental  LLSPEYIFPFSIRLKSNIRSTKSTKKSLQKV-DEEDSDEESDHDEMSEQEEELEDDPTVVKNYKDLEKTV
          L.SPEYIFPFSIRL.SN..S.KST.KS.QKV.DEEDSDEESDHDEMSEQEEELEDDPT.VK.Y.D.EK..
Retrocopy LISPEYIFPFSIRLRSNKSSNKSTTKSPQKVEDEEDSDEESDHDEMSEQEEELEDDPTIVKDYQDVEKAM

Parental  QSFRYDVVLKTGLDIGRNKVEDAFYKGELRLNEEKLWKKSRTVKVGDTLDLLIGE
          QSF.YD.VLKTGLD.GRNKVEDAFYK.ELRLN.EKLWKK.RTVKVGDTLDLLIG.
Retrocopy QSFWYDDVLKTGLDTGRNKVEDAFYKSELRLNGEKLWKKNRTVKVGDTLDLLIGD

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_1433 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003732	1 retrocopy	retro_cfam_1818,
Homo sapiens	ENSG00000130349	1 retrocopy	retro_hsap_3538,
Gorilla gorilla	ENSGGOG00000006113	1 retrocopy	retro_ggor_2389,
Macropus eugenii	ENSMEUG00000013534	1 retrocopy	retro_meug_2181,
Microcebus murinus	ENSMICG00000004137	1 retrocopy	retro_mmur_1269,
Macaca mulatta	ENSMMUG00000007391	1 retrocopy	retro_mmul_115,
Nomascus leucogenys	ENSNLEG00000013450	2 retrocopies	retro_nleu_1433 , retro_nleu_499,
Otolemur garnettii	ENSOGAG00000008839	2 retrocopies	retro_ogar_1396, retro_ogar_390,
Pongo abelii	ENSPPYG00000016885	1 retrocopy	retro_pabe_2922,
Pan troglodytes	ENSPTRG00000018464	2 retrocopies	retro_ptro_1453, retro_ptro_2405,
Tursiops truncatus	ENSTTRG00000008837	2 retrocopies	retro_ttru_324, retro_ttru_432,