RetrogeneDB ID: retro_nleu_534

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397267.1:4148871..4150245(+)
• Located in intron of: ENSNLEG00000000981

Retrocopy information

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

Parental gene information

• Parental gene symbol: ESF1
• Ensembl ID: ENSNLEG00000014563
• Aliases: None
• Description: None

Sequence

>retro_nleu_534
ATTATTCAACATACTATCAACTCTTCTCTCAAAGAAAAATGAAGGACATTAGACTCGGGCACCTCTGCTGTGAAATCTCC
CAAGATCAAGTGTTCTAAGACAAGAAAAGAAATGCAACCAGTGGTTCCATCCATAATGGCAAGTGGCAGTGATGGTTATG
AAAACTCAACAGATAGTAAAATGTTTGACAAAGATGCTCTAAAGGAAGATTTAGAAAGTGTTAGTAAAACAGGAAGTGAT
GAAGAATCTAAAAATGAAATTACAAGTATTGGTAGAGCTTCAGGTGATGATGACAATGGAAGTGATGATGAAGATGAAGA
GGAGGATGAAGAGAATGGTAAGGATGATGATGCAAGTGACAGCAGCCCTAATCTTGCAAGGGGTAAAGGGAATATAGAAA
CTAGTTCTGAAAATGAGGATGATATGGCAGATTTGTTTCCAAAAGAATCAAGTTTTGGTCATGCATGGAGAGAGTCAGAT
AAACCTGCTCCTCGTGCTGATGACATTACACATCAATAGCAGTTTGCAACATGGACTGGGATAGATTAAAGGCAAAAGAT
TTGCTGACTCTGTTCAACTGATTTAAACCTAAAGGAGGTGTTATATTTTCTGTAAAAATATATTCTTCAGAGTTTGGAAA
GGAGAGGGTGAAGGAAGAGCAAGTTTGAGGACCAGTAGAGCTATTAAGTTTTCCTGAAGATGCCCCAGAAAAGGACTGGA
CCTCTAGAGAAAAACTGAGAGGTTATCAATTCAAATGACTGAAGTACTATTATGCAGTAGTAGACTGTCATTCTCCTGAA
ACAGCCAGTAAAATTTATGAGGATTGTGGTGGCCTGGAATTTGAAAGTAGTTGTTCTTTCATAGATTTAAGGTTTATACC
AGATGATACTACTTTTGATGATGAGCCCAAGGACGTAGCCTCAGAGGTGTATTTAACAGCATATAAACTCAATATATAAC
ATATCTGCTGCAATGGGAACATCAGTGGTGGAAATCACTTGGGATGAGACTGAACATGAAAGAATTACAACACTAAACAG
GAAGCTTAAAAGGAAGAGCTTTTGGACATGGATTTTCAAGACCACTTAGCTTCCTCTAGCGAAAATGAAGAGGAGATAGA
AGAGGAGCTACAAGGTGATGATGAAGTCAATGTAGAAGAAGATATTGGAAAACAAAGAAAAGTCAGAAGGACGACGAAGA
ACAAATCACTAAATATATGCAACTCTTGCAGGTTATTCAAGAAAAAGAAAAGAAAGACAAAAAAAACGATAGGGAAATGG
AAACGAAGTGGGTTCCAGGTCTTAAAGAAAGTGCAAAGAGATGGTCAAGAACAAATTGGAAGGAAAGGATAAACTGACCC
CTTGGGAACAATTT

Alignment

ORF - retro_nleu_534 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.36 %
• Parental protein coverage: 54.47 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  IVQHTTDSSLEEKRRTLDSGTSEIVKSPRIKCSKTGRKMQSVVPPIMTRDSDGYENSTDGEMFDKDALEE
          I.QHT..SSL.EK.RTLDSGTS..VKSP.IKCSKT...MQ.VVP.IM...SDGYENSTD..MFDKDAL.E
Retrocopy IIQHTINSSLKEK*RTLDSGTSA-VKSPKIKCSKTRKEMQPVVPSIMASGSDGYENSTDSKMFDKDALKE

Parental  DSESISEIRSGEESENEITGVGRASGDDDDGSDDEDGDEDEEEDEDEDSEDDDESDSGPDLARGKGNIET
          D.ES.S...S.EES.NEIT..GRASGDDD.GSD....DEDEEEDE.E...DDD.SDS.P.LARGKGNIET
Retrocopy DLESVSKTGSDEESKNEITSIGRASGDDDNGSD----DEDEEEDE-ENGKDDDASDSSPNLARGKGNIET

Parental  SSEDEDDMADLFPEESGFEHAWRELDKDAPRADEITRR-LAVCNMDWDRLKAKDLLALFNSFKPKGGVIF
          SSE.EDDMADLFP.ES.F.HAWRE.DK.APRAD.IT....AVCNMDWDRLKAKDLL.LFN.FKPKGGVIF
Retrocopy SSENEDDMADLFPKESSFGHAWRESDKPAPRADDITHQ<IAVCNMDWDRLKAKDLLTLFN*FKPKGGVIF

Parental  SVKIYPSEFGKERMKEEQVQGPVELLSIPEDAPEKDWTSREKLRDYQFKRLKYYYAVVDCDSPETASKIY
          SVKIY.SEFGKER.KEEQV.GPVELLS.PEDAPEKDWTSREKLR.YQFK.LKYYYAVVDC.SPETASKIY
Retrocopy SVKIYSSEFGKERVKEEQV*GPVELLSFPEDAPEKDWTSREKLRGYQFK*LKYYYAVVDCHSPETASKIY

Parental  EDCDGLEFESSCSFIDLRFIPDDITFDDEPKDVASEVNLTAYKPK-YFTSAAMGTSTVEITWDETDHERI
          EDC.GLEFESSCSFIDLRFIPDD.TFDDEPKDVASEV.LTAYK...Y..SAAMGTS.VEITWDET.HERI
Retrocopy EDCGGLEFESSCSFIDLRFIPDDTTFDDEPKDVASEVYLTAYKLN>YNISAAMGTSVVEITWDETEHERI

Parental  TMLNRKFK-KEELLDMDFQAYLASSSE-DEETEEELQGDDGVNVEED-GK-TKKSQKDDEEQIAKYRQLL
          T.LNRK.K.KEELLDMDFQ..LASSSE..EE.EEELQGDD.VNVEED.GK.TKKSQKDDEEQI.KY.QLL
Retrocopy TTLNRKLK<KEELLDMDFQDHLASSSENEEEIEEELQGDDEVNVEEDIGK<TKKSQKDDEEQITKYMQLL

Parental  QVIQEKEKKGKENDMEMEIKWVPGLKESA-EEMVKNKLEGKDKLTPWEQF
          QVI..........D.EME.KWVPGLKESA..EMVKNKLEGKDKLTPWEQF
Retrocopy QVIXXXXXXXXXXDREMETKWVPGLKESA<KEMVKNKLEGKDKLTPWEQF

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_534 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000006692	1 retrocopy	retro_ggor_2658,
Nomascus leucogenys	ENSNLEG00000014563	1 retrocopy	retro_nleu_534 ,