RetrogeneDB ID: retro_nleu_1093

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397281.1:19827093..19828302(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018743
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: METTL15
• Ensembl ID: ENSNLEG00000017865
• Aliases: None
• Description: None

Sequence

>retro_nleu_1093
ATGCTTCAATATCCATATTTTTGTAGAACGTATAAAGAATGTCTTTCATGTTGGTTGGAATCTGGCATACCTAATTTAGG
TGTCTGGCCAAAAAGAATACATACTACAGCAGAAAAATATAAAGAATGTGAAGCCCAGGAGCAAACAGATCAAACTCAAG
CCCAGGAGTTAAACAGATCTCAAGATAGAGATTTTGAGACTATGGCTAAATTACATATTCCAGTAATGGTGGATGAAGTT
GTTCATTGTTTGTCACCACAAAAAGGACAGGTTTTTCTAGATATGATATTTGGTTCAGGAGGGCACACAAAAGCTATTCT
ACAGAAGGAGTCAGATATTGTTCTGTATGCCTTGGACAGAGACACAAGAGCTTATGCATTAGCTGAACATCTTTCAGAGT
TGTATCCTAGACAAATCCGAGCTATGCTGGGCTAGTTCAGCCAAGCTGAAGCCTTATTAATGAAAGCTGGAGTGCAGCCA
GGGACTTTTGATGGAGTTCTTATGGATCTTGGGTGTTCCTCCATACAACTTGACACTCCCGAAAGAGGTTTTTCCCTTCA
GAAAGACGGCCCCTTAGACATGAGGATGGATGGTGGCAGGTACCCTGACATGCCCACTGCTGCTAATGTTGTGAATGCTT
TAGATCAACAGGTACTTGCACCTATCCTAAGAACATATGGGGAGGAGAAGCATGCCAAGAAAATCACTTCAGCACACAGC
ATCTACCCCATTACCAGAAACCAGCAGCTTGCCAGCATCATCACGGGATCATTTCTTCCCTCTGCTATTTATGCACGAAA
AGACCTGCTACAACGATCTACTCATATTGCCACCAAGACTTTCCAGGCTCTTCGCATATTTGTGAACAATGAGCTCAATG
AACTCTACACAGGACTGAAGACAGCTCAGAAGTTTCTGAGACCTGGTGGTTGCCTTGTTGCCCTCTCCTTCCATTCACTA
GAGGACTGCATCGTCAAAAGATTTTTGCTTGGAATAAGCATGAAAGAAACGTTTAACCTAAGTGTTACACAGCAAGTGAT
GAAAACATTGCAACTGGGTTCAGATCATGAAAACACGGTAGAAGTCTCTATGAGAAGAGCTCCTTTAACGTGGGAATTGA
TACACAAGAAGGTACTTAGTCCACAAGATCAGGATGTACAAGATAACTCCAGAGGGTGCTCAGCCAAGCTCAGAGGAGCT
ATCAAATTA

Alignment

ORF - retro_nleu_1093 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.24 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLRYAYFCRMCKECLSCWLESGIPNLGVWPKRIHTTAGKYREYEAREQTYQTQAQELHRSQDRDFETMAK
          ML.Y.YFCR..KECLSCWLESGIPNLGVWPKRIHTTA.KY.E.EA.EQT.QTQAQEL.RSQDRDFETMAK
Retrocopy MLQYPYFCRTYKECLSCWLESGIPNLGVWPKRIHTTAEKYKECEAQEQTDQTQAQELNRSQDRDFETMAK

Parental  LHIPVMVDEVVHCLSPRKGQIFLDMTFGSGGHTKAXXXXXXXXXLYALDRDPTAYALAEHLSELYPKQIR
          LHIPVMVDEVVHCLSP.KGQ.FLDM.FGSGGHTKA.........LYALDRD..AYALAEHLSELYP.QIR
Retrocopy LHIPVMVDEVVHCLSPQKGQVFLDMIFGSGGHTKAILQKESDIVLYALDRDTRAYALAEHLSELYPRQIR

Parental  AMLGQFSQAEALLMKAGVQPGTFDGVLMDLGCSSMQLDTPERGFSLRKDGPLDMRMDGGRYPDMPTAADV
          AMLG.FSQAEALLMKAGVQPGTFDGVLMDLGCSS.QLDTPERGFSL.KDGPLDMRMDGGRYPDMPTAA.V
Retrocopy AMLG*FSQAEALLMKAGVQPGTFDGVLMDLGCSSIQLDTPERGFSLQKDGPLDMRMDGGRYPDMPTAANV

Parental  VNALDQQALASILRTYGEEKHAKKIASAIVQARSIYPITRTQQLASIVAGAFPPSAIYARKDLLQRSTHI
          VNALDQQ.LA.ILRTYGEEKHAKKI.SA.....SIYPITR.QQLASI..G.F.PSAIYARKDLLQRSTHI
Retrocopy VNALDQQVLAPILRTYGEEKHAKKITSA----HSIYPITRNQQLASIITGSFLPSAIYARKDLLQRSTHI

Parental  ATKTFQALRIFVNNELNELYMGLKTAQKFLRPGGRLVALSFHSLEDRIVKRFLLGISMTERFNLSVRQQV
          ATKTFQALRIFVNNELNELY.GLKTAQKFLRPGG.LVALSFHSLED.IVKRFLLGISM.E.FNLSV.QQV
Retrocopy ATKTFQALRIFVNNELNELYTGLKTAQKFLRPGGCLVALSFHSLEDCIVKRFLLGISMKETFNLSVTQQV

Parental  MKTSQLGSDYENTEEVSVRRAPLMWELIHKKVLSPQDQDVQDNPRGRSAKLRAAIKL
          MKT.QLGSD.ENT.EVS.RRAPL.WELIHKKVLSPQDQDVQDN.RG.SAKLR.AIKL
Retrocopy MKTLQLGSDHENTVEVSMRRAPLTWELIHKKVLSPQDQDVQDNSRGCSAKLRGAIKL

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_1093 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006142	2 retrocopies	retro_cjac_3301, retro_cjac_4047,
Homo sapiens	ENSG00000169519	2 retrocopies	retro_hsap_1123, retro_hsap_4656,
Macaca mulatta	ENSMMUG00000013616	1 retrocopy	retro_mmul_870,
Nomascus leucogenys	ENSNLEG00000017865	2 retrocopies	retro_nleu_1093 , retro_nleu_187,
Oryctolagus cuniculus	ENSOCUG00000014291	1 retrocopy	retro_ocun_536,
Pongo abelii	ENSPPYG00000003399	1 retrocopy	retro_pabe_3617,
Pan troglodytes	ENSPTRG00000003461	1 retrocopy	retro_ptro_680,