RetrogeneDB ID: retro_nleu_1445

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397293.1:17149231..17150030(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXW11
• Ensembl ID: ENSNLEG00000000338
• Aliases: None
• Description: F-box and WD repeat domain containing 11 [Source:HGNC Symbol;Acc:13607]

Sequence

>retro_nleu_1445
CTGTGTGCAGCAGAACTGGTATGTAAAGAATGGCAGGGAGTGATCTCAGAATGAATGCTTTGGAAGAAGCTGATTGAACC
AATGGTACACACTGATCCCCTATGGAAAGGACCTTCAGAAAGAAGAGGGTGGGATCAGTACCTGTTTCAAAACAGACCCA
CAGCTAGCCCTCCAAATTCATTTTATAGGTCATTATACCCAAAGATTATCCAGGATATAGAAACTATAGAATCCACCTAG
CAGTGTGGCCGACACAGCTTGCAGAGGATTCAGTACCGCTCTGAAAATAGTAAAGGTGTCTACGGTTTACAGTACGATGA
TGAAAAAATTATCAGTGGCCTATAAGATAATTATGTTAAGATTTGGGATAAAACCAGCCTGGAATGTTTGAAAGTGTTAA
CGGCCACACAGGCTCTGTCCTCTGACTGCAGTAGGATGAGCATGTCATTGTAACTGGCTCTTCGGATTCTACGGTGAGAG
TGTGGGAAGTGAACACGGGTGACGTTCTTAATACATTAATCCACCACAATGAGGATGTACTGCACTTACGCTTCAGCAGT
GGACTGATGGTGACCTGTTCCAAGGACCGCTCCATTGCTGTGTGGGACATGGCTTCTGCGACCGATATCACTTTATGCAG
TGTCCTGGTTGGCCACTGAACTGCTGTCAACGTAATAGACTTTGACGAGAAATACCTCATGTCCGCCTCTGTGACAGGAC
CGTCAAAGTCTGGAGCATGAGCACCTGTGAATTTGCTCATACTCTCAATGGACACAGGCGAGTCTTGTCTCCAGTACAG

Alignment

ORF - retro_nleu_1445 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.27 %
• Parental protein coverage: 52.56 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LCAAELVCKEWQRVISEGMLWKKLIERMVRTDPLWKGLSERRGWDQYLFKNRPTDGPPNSFYRSLYPKII
          LCAAELVCKEWQ.VISE.MLWKKLIE.MV.TDPLWKG.SERRGWDQYLF.NRPT..PPNSFYRSLYPKII
Retrocopy LCAAELVCKEWQGVISE*MLWKKLIEPMVHTDPLWKGPSERRGWDQYLFQNRPTASPPNSFYRSLYPKII

Parental  QDIETIESNWRCGRHNLQRIQCRSENSKGVYCLQYDDEKIISGLRDNSIKIWDKTSLECLKVLT-GHTGS
          QDIETIES...CGRH.LQRIQ.RSENSKGVY.LQYDDEKIISGL.DN..KIWDKTSLECLKVLT.GHTGS
Retrocopy QDIETIEST*QCGRHSLQRIQYRSENSKGVYGLQYDDEKIISGL*DNYVKIWDKTSLECLKVLT<GHTGS

Parental  VLCLQYDERVIVTGSSDSTVRVWDVNTGEVLNTLIHHNEAVLHLRFSNGLMVTCSKDRSIAVWDMASATD
          VL.LQ.DE.VIVTGSSDSTVRVW.VNTG.VLNTLIHHNE.VLHLRFS.GLMVTCSKDRSIAVWDMASATD
Retrocopy VL*LQ*DEHVIVTGSSDSTVRVWEVNTGDVLNTLIHHNEDVLHLRFSSGLMVTCSKDRSIAVWDMASATD

Parental  ITLRRVLVGHRAAVNVVDFDDKYIVSAS-GDRTIKVWSTSTCEFVRTLNGHKRGIACLQ
          ITL..VLVGH..AVNV.DFD.KY..SAS..DRT.KVWS.STCEF..TLNGH.R.....Q
Retrocopy ITLCSVLVGH*TAVNVIDFDEKYLMSAS<CDRTVKVWSMSTCEFAHTLNGHRRVLSPVQ

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_1445 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000007880	1 retrocopy	retro_ggor_1576,
Microcebus murinus	ENSMICG00000004512	1 retrocopy	retro_mmur_1457,
Macaca mulatta	ENSMMUG00000016008	1 retrocopy	retro_mmul_1596,
Nomascus leucogenys	ENSNLEG00000000338	1 retrocopy	retro_nleu_1445 ,
Nomascus leucogenys	ENSNLEG00000017023	1 retrocopy	retro_nleu_2886,