RetrogeneDB ID: retro_nleu_395

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397264.1:40430648..40431739(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NAE1
• Ensembl ID: ENSNLEG00000004047
• Aliases: None
• Description: None

Sequence

>retro_nleu_395
AAGAGTCCAGAAAACCTTCCAAACAGTGATCTTTTGTTTTCCTGTATTTTCACCACTGTGGTTACAATTTGGCTTCCTGA
AAGTATATTACGATGCTTCCTGATGTCCTCAGGAATTCTCAAATCCCTCTTTTAAACTTTAAGACATATGGACCAGTTGG
CCATAGAAGGATCATAATAAAAGAATATACAATAATAGAATTTCACCCAGATAGTGTATTCAAGATCTGTGGCTGGATAA
ATTGTTTTCTGAGCTGAGAGATTATTTCAGTCTTATATTTTAGATCATATGTTAAAAAAAACCACAGCCATACCCCAAGG
ATTTTGATCATAGATAAATATTTAGCACAGTAGAATAGTAAAACAAATGGATGAATATCTAAAATGTATGAAGAAAAAGA
GCACTTAAGAGATTTGATTATACAAAAGATTCTAAATAATACAAATAGGACTTCAGAAGATGAAAAGAATTCTGAAGAAA
CTATTAAAATATGAACATGGCAATAAATATTAAGATACCAAACAATATTTAAGATATATTTAATAATAATTTCTGAATAA
ATATCAGCAAACAGACTTCATCCTTTGGGGTTTTAGCTTATGCCTTAAAGGAATTTGTGGCCAAGGAAGGTCAAGGAAAT
TCTCCTATTCAAGTACAATTCCTGACACAATTGCCAACATGAAAAAACATATAAATACACAAAATATTTACTGTGTGAAA
GCAAATGAATATGTTTCTCCTGTGAATAAATCATGCCAACAAAATGCTGCAGTTCATAGACCAGGCGACCAATGACAGTT
GCAAAGAAAGAATCGAAATTACTCTGTAGCAATTCTTCATTTCTTGGAGTCTTAAGATGTGAATCCTTTACTGAAGAATA
TGGTTTGGATACAATTAACAAGAATAAAATCTTTTCTAGCGTGGGCACTGCAGATAATGAAATAGTATTGTACTTAATGT
TACGGACTATTGATAGATTTTATATGCAACAATATAGATGTCCATGGATATCTAACTATCAAGTTGAAGAAAATTTAGGA
AAGTGAAAGTCCTGTTTTACTGGTTTCCTTCAGGAATATAGATTCTCTATT

Alignment

ORF - retro_nleu_395 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.36 %
• Parental protein coverage: 69.32 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  ESPENLLDNDPSFFCRFTVVVATQLAESTL-LRLANVLWNSQIPLLICRTYGLVGYMRIIIKEHPVIESH
          .SPENL...D..F.C.FT.VV...L.ES.L...L..VL.NSQIPLL...TYG.VG..RIIIKE...IE.H
Retrocopy KSPENLPNSDLLFSCIFTTVVTIWLPESIL<TMLPDVLRNSQIPLLNFKTYGPVGHRRIIIKEYTIIEFH

Parental  PDNA-LEDLRLDKPFPELREHF-QSYDLDHMEKKD-HSHTPWIVIIAKYLAQWYSETNGRIPKTYKEKED
          PD.....DL.LDK.F.ELR..F.QSY.LDHM.....HSHTP.I.II.KYLAQ..S.TNG.I.K.Y.EKE.
Retrocopy PDSV<IQDLWLDKLFSELRDYF<QSYILDHMXXXX<HSHTPRILIIDKYLAQ*NSKTNG*ISKMYEEKEH

Parental  FRDLIRQGILKNENGAPEDEENFEEAIK-NVNTALNTTQIPSSIEDIFNDDRCINITKQTPSFWILARAL
          .RDLI.Q.IL.N.N...EDE.N.EE.IK.N.N.A.N...IP..I.DIFN....INI.KQT.SF..LA.AL
Retrocopy LRDLIIQKILNNTNRTSEDEKNSEETIK<NMNMAINI-KIPNNI*DIFNNNF*INISKQTSSFGVLAYAL

Parental  KEFVAKEGQGNLPVR-GTIPDMIADSGKYIKLQNVYREKAKKDAAAVG-NHVAKLLQSIGQA-PESISEK
          KEFVAKEGQGN.P....TIPD.IA...K.I..QN.Y..KA......V..NH..K.LQ.I.QA.P.....K
Retrocopy KEFVAKEGQGNSPIQ<STIPDTIANMKKHINTQNIYCVKANEYVSPVN>NHANKMLQFIDQA>PMTVAKK

Parental  ELKLLCSNSAFLRVVRCRSLAEEYGLDTINKDEIISSMDNPDNEIVLYLMLRAVDRFHKQHGRYPGVSNY
          E.KLLCSNS.FL.V.RC.S..EEYGLDTINK..I.SS....DNEIVLYLMLR..DRF..Q..R.P..SNY
Retrocopy ESKLLCSNSSFLGVLRCESFTEEYGLDTINKNKIFSSVGTADNEIVLYLMLRTIDRFYMQQYRCPWISNY

Parental  QVEEDIGKLKSCLTGFLQEYGLSV
          QVEE..GK.KSC.TGFLQEY..S.
Retrocopy QVEENLGK*KSCFTGFLQEYRFSI

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_395 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000021954	1 retrocopy	retro_ecab_942,
Nomascus leucogenys	ENSNLEG00000004047	1 retrocopy	retro_nleu_395 ,
Otolemur garnettii	ENSOGAG00000014645	1 retrocopy	retro_ogar_1443,
Pongo abelii	ENSPPYG00000007428	2 retrocopies	retro_pabe_3596, retro_pabe_759,