RetrogeneDB ID: retro_nleu_2886

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397464.1:323571..324295(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXW2
• Ensembl ID: ENSNLEG00000017023
• Aliases: None
• Description: None

Sequence

>retro_nleu_2886
TCTGCAAAGCTGTGGGATGTGACCACAGGGCAGTGCGTTTGTGGCATCCAGACCCACACTTGTGCAGTGGTGACGTTCAG
TGAACAGAAGCTTGTGACAGGCTCCTTTGACAACACTGTGGCTTGCTGGGAATGGAGTTCCAGAGCCAGGATCCAGCACT
TTCGCGGGCACAGTGAGCAGTGTTCAGTGCGGACTACAGTGATATCTTGGTGAGTGGCTCTGCGGACGTCACTGTGAAAG
GATGGACTTTATCTACTGGGGCATGCCTGAGCACACTTGCTGGGCACACGGCATGGGTCAGCAAGGTAGTTCTGCAGAAG
TGCAAAGTCAAGTCTCTCTTGCACACGGCCCGGAAGAATACCTCCTCTTAAGTGCAGGCAAATATGAGATTAGGATTTGG
CCAGTTGGGACAGAAATCAACTGCAAGTGCTTAAAGACACTGTCTTGTCTCTGAGGATAGAAGTATCCGCCTGCAGCCAA
GACTTCATGTTGATGGCAAATACACTGTCTGTAGTGCAGCACTCATCTCTACCAGCGGGACTTTACCAACAGTTATGATA
TTCTCAGGGTCATCAAGACTCATGAGATAGCAAACTTGGCCTTGCTTGGCTTTGGAAATATTGTTGCCCTACTGTTTGGC
AGCTGCCACCCATACATCATGGACTTGCAGACCCAGAGCCTGATTAGTCGCTCGCCTCTTCCAGAGTACAAGAAATCAGA
GAGG

Alignment

ORF - retro_nleu_2886 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.11 %
• Parental protein coverage: 53.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SAKLWDVSTGQCVYGIQTHTCAAVKFDEQKLVTGSFDNTVACWEWSSGARTQHFRGHTG-AVFSVDYNDE
          SAKLWDV.TGQCV.GIQTHTCA.V.F.EQKLVTGSFDNTVACWEWSS.AR.QHFRGH...AVFS.DY.D.
Retrocopy SAKLWDVTTGQCVCGIQTHTCAVVTFSEQKLVTGSFDNTVACWEWSSRARIQHFRGHSE<AVFSADYSD-

Parental  LDILVSGSADFTVKVWALSAGTCLNTLTGHTEWVTKVVLQKCKVKSLLHS-PG-DYILLSADKYEIKIWP
          ..ILVSGSAD.TVK.W.LS.G.CL.TL.GHT.WV.KVVLQKCKVKSLLH..PG..Y.LLSA.KYEI.IWP
Retrocopy --ILVSGSADVTVKGWTLSTGACLSTLAGHTAWVSKVVLQKCKVKSLLHT>PG>EYLLLSAGKYEIRIWP

Parental  IGREINCKCLKTLS-VSEDRSICLQPRLHFDGKYIVCSSAL-GLYQWDFA-SYDILRIIKTPEIANLALL
          .G.EINCKCLKTLS.VSEDRSI.LQPRLH.DGKY.VCS.AL..LYQ.DF..SYDILR.IKT.EIANLALL
Retrocopy VGTEINCKCLKTLS>VSEDRSIRLQPRLHVDGKYTVCSAAL<HLYQRDFTNSYDILRVIKTHEIANLALL

Parental  GFGDIFALLFDNRYLYIMDLRTESLISRWPLPEYRKSKR
          GFG.I.ALLF.....YIMDL.T.SLISR.PLPEY.KS.R
Retrocopy GFGNIVALLFGSCHPYIMDLQTQSLISRSPLPEYKKSER

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_2886 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000000338	1 retrocopy	retro_nleu_1445,
Nomascus leucogenys	ENSNLEG00000017023	1 retrocopy	retro_nleu_2886 ,
Tupaia belangeri	ENSTBEG00000015141	1 retrocopy	retro_tbel_4057,