RetrogeneDB ID: retro_nleu_1773

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397308.1:10181903..10182453(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FDX1L
• Ensembl ID: ENSNLEG00000012175
• Aliases: None
• Description: None

Sequence

>retro_nleu_1773
GTCATGGCCACCTCCGAGGGCCGGGGTGGAATGAGTGCCAGGGTTCTGCTGTGGGCTGCCAGGGACACCTTGTGTAACAG
ACCCAGAAGCTCTTTAGGGTCCAGGGAGGCGTAGGCACCAGTGACAACCAGGACATTTCAGGAGACAGGCTGACGTGCCA
GGCGGGAGAGGTAGAGCCCAGCGGCCCTGAGCGGCCCAGGGATGTGGTGAAAGTGGTCTTTGTAGACCTGTCAGGCTGGC
GGATCCAGTGAGCTGCAGAGTCGGAGGACAGTTTCTCCACCTGACCCAATGCCACGGGCTGAACCTGGAAGGCGCCTGTG
AAGCCTTCCTGGCATGCTCCACCTGCCATGTGCATGTGAGCAAAGACCTGGACCTTCTGCCTCCTCCCGAAGAGAGGGAA
GACGGCATGCTAGACATGGCCTCCCTCCTCCAGGAGAACTCCCCGCTGGGCCGGCAGATCGTGCTGACGCTAGAGCTGGA
AGGGGCAGAATTCAGCCTGCCCTAGAACACCAGGAACTTCTACGTAGACTGCCATATCCCCAAGCCCCAC

Alignment

ORF - retro_nleu_1773 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.25 %
• Parental protein coverage: 98.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VMAASMARGGVSARVLLQAARGTWWNRPGGTSGSGE-GVAPGTTRKFQATGSR---PAGEEDAGGPERPG
          VMA.S..RGG.SARVLL.AAR.T..NRP....GS.E.GV..GT.......G.R....AGE....GPERP.
Retrocopy VMATSEGRGGMSARVLLWAARDTLCNRPRSSLGSRE<GV--GTSDNQDISGDRLTCQAGEVEPSGPERPR

Parental  DVVNVVFVDRSGQRI-PVSGRVGDNVLHLAQRHGVDLEGACEASLACSTCHVYVSEDHLDLLPPPEERED
          DVV.VVFVD.SG.RI.PVS.RVG...LHL.Q.HG..LEGACEA.LACSTCHV.VS.D.LDLLPPPEERED
Retrocopy DVVKVVFVDLSGWRI<PVSCRVGGQFLHLTQCHGLNLEGACEAFLACSTCHVHVSKD-LDLLPPPEERED

Parental  DMLDMAPLLQENSRLGCQIVLTPELEGAEFTLPKITRNFYVDGYVPKPH
          .MLDMA.LLQENS.LG.QIVLT.ELEGAEF.LP..TRNFYVD...PKPH
Retrocopy GMLDMASLLQENSPLGRQIVLTLELEGAEFSLP*NTRNFYVDCHIPKPH

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_1773 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000267673	1 retrocopy	retro_hsap_331,
Gorilla gorilla	ENSGGOG00000006009	1 retrocopy	retro_ggor_355,
Macaca mulatta	ENSMMUG00000022896	1 retrocopy	retro_mmul_584,
Mus musculus	ENSMUSG00000079677	1 retrocopy	retro_mmus_2676,
Nomascus leucogenys	ENSNLEG00000007249	1 retrocopy	retro_nleu_1432,
Nomascus leucogenys	ENSNLEG00000012175	1 retrocopy	retro_nleu_1773 ,
Pan troglodytes	ENSPTRG00000010465	1 retrocopy	retro_ptro_267,