RetrogeneDB ID: retro_nleu_2748

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397418.1:372468..372990(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: JDP2
• Ensembl ID: ENSNLEG00000016475
• Aliases: None
• Description: None

Sequence

>retro_nleu_2748
CTTCTGCACGGCTAGCCTGCCACTCCTCCTGCTATGATGCTTGGGCAGATCCCGGACCCTTCGGTGACCGCAGGCTCCCT
GCCAGGGCGTGGCCCCCTGACCGGACTCCCCAGCTCGGCCCTGACTGTGGAGGAGCTGAAATACGCTGACATCCGCAACC
TCGGGGCCATGATTGCACCCTTGCACTTCCTGGAGGTGAAACTGGGCAAGAGGCCCCAGCCCATGAAAAGTGAGCTAGAT
GAGGAAGAGGAGCGAAGGAAAAGGCGCCGGGAGAAGAACAATGTCGCAGCAGCCCGATGCCGGAACAAGAAGAAGGCGCA
CACGGAGATTCTGTAGCGGGAATCCGAGCGGCCGGAACTCATGAACGCAGAGCTGAAGACCCAGATTGAGGAATTGAAGC
AGGAGCGGCAACAGCTCATCCTGATGCTGAACCGACACCGCCCCACCTGCATTGTCCGGACGGACAGTGTCAAGACTCCC
GAGTCAGAAGGCAACCCGCTGCTTGAGTAGCTCAAGAAGAAG

Alignment

ORF - retro_nleu_2748 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.38 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVAGWPATPPAMMPGQIPDPSVTAGSLPGLGPLTGLPSSALTVEELKYADIRNLGAMIAPLHFLEVKLGK
          ...G.PATPPAMM.GQIPDPSVTAGSLPG.GPLTGLPSSALTVEELKYADIRNLGAMIAPLHFLEVKLGK
Retrocopy LLHG*PATPPAMMLGQIPDPSVTAGSLPGRGPLTGLPSSALTVEELKYADIRNLGAMIAPLHFLEVKLGK

Parental  RPQPVKSELDEEEERRKRRREKNKVAAARCRNKKKERTEFLQRESERLELMNAELKTQIEELKQERQQLI
          RPQP.KSELDEEEERRKRRREKN.VAAARCRNKKK..TE.L.RESER.ELMNAELKTQIEELKQERQQLI
Retrocopy RPQPMKSELDEEEERRKRRREKNNVAAARCRNKKKAHTEIL*RESERPELMNAELKTQIEELKQERQQLI

Parental  LMLNRHRPTCIVRTDSVKTPESEGNPLLEQLEKK
          LMLNRHRPTCIVRTDSVKTPESEGNPLLE.L.KK
Retrocopy LMLNRHRPTCIVRTDSVKTPESEGNPLLE*LKKK

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_2748 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000002256	13 retrocopies	retro_mluc_1, retro_mluc_1530, retro_mluc_1553, retro_mluc_1840, retro_mluc_185, retro_mluc_2066, retro_mluc_2101, retro_mluc_2481, retro_mluc_343, retro_mluc_598, retro_mluc_927, retro_mluc_971, retro_mluc_988,
Nomascus leucogenys	ENSNLEG00000016475	1 retrocopy	retro_nleu_2748 ,