RetrogeneDB ID: retro_nleu_952

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397277.1:18681193..18681763(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL10
• Ensembl ID: ENSNLEG00000001803
• Aliases: None
• Description: None

Sequence

>retro_nleu_952
CAGGAGATGGGCCTCATCTGGCTTCTCCGCCGGGAGATAGCAGCAGTTTTCCAGGACAACCAAATGATAGCTGTCTGCCA
GAATGTGGCTCTGAGCGCAGAAGACGAGCTTCTTATGCGACACCAGCTGCGGAAACACAGGATCCTGATGAAGGTCTTCC
ACAACCAGGTCCTGAATCCCTTCCTGGAGGATTCCAAGTACCAAAATCTGCTGCCCCTTTTTGTGGGGCACAACATGCTG
CTGGTCAGTGAAGAGCCCAAGGTCAAGGAGATGCTAAGGATCTTAAGGAGTGTGCCATTCCTGCTGCTGCTAGGTGGATG
CATCAATGACATAGATGCCATCCTCAGCAGGCAGGGCTTTATCAACTACTCCAACCTTCCCAGCGTGCCCCTGGCACAGG
GGGAGATTGTGGGAGGCCTCACCCCACTCATAGTCCAGACCCACTCCCTGCTCCAGCACCAGCCCCTGCAGTTGACCACC
CTATTGGACCAGTACATCAGACAGCAAGGCGAGAAGGATTCTGTCGTGTCAGCCAATGGGAAGCCAGATCCTCCTGACCC
TGTTCCGGAC

Alignment

ORF - retro_nleu_952 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.26 %
• Parental protein coverage: 71.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EETGLIRLLRREIAAVFQDNRMIAVCQNVALSAEDKLLMRHQLRKHKILMKVFPNQVLKPFLEDSKYQNL
          .E.GLI.LLRREIAAVFQDN.MIAVCQNVALSAED.LLMRHQLRKH.ILMKVF.NQVL.PFLEDSKYQNL
Retrocopy QEMGLIWLLRREIAAVFQDNQMIAVCQNVALSAEDELLMRHQLRKHRILMKVFHNQVLNPFLEDSKYQNL

Parental  LPLFVGHNMLLVSEEPKVKEMVRILRTVPFLPLLGGCID--DTILSRQGFINYSKLPSLPLVQGELVGGL
          LPLFVGHNMLLVSEEPKVKEM.RILR.VPFL.LLGGCI...D.ILSRQGFINYS.LPS.PL.QGE.VGGL
Retrocopy LPLFVGHNMLLVSEEPKVKEMLRILRSVPFLLLLGGCINDIDAILSRQGFINYSNLPSVPLAQGEIVGGL

Parental  TRLTAQTHSLLQHQPLQLTTLLDHYIREQRERDSVMSANGKPD-PDPVPD
          T.L..QTHSLLQHQPLQLTTLLD.YIR.Q.E.DSV.SANGKPD.PDPVPD
Retrocopy TPLIVQTHSLLQHQPLQLTTLLDQYIRQQGEKDSVVSANGKPDPPDPVPD

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_952 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000159111	1 retrocopy	retro_hsap_3234,
Nomascus leucogenys	ENSNLEG00000001803	1 retrocopy	retro_nleu_952 ,
Otolemur garnettii	ENSOGAG00000006173	1 retrocopy	retro_ogar_989,
Pongo abelii	ENSPPYG00000008881	1 retrocopy	retro_pabe_2680,
Pan troglodytes	ENSPTRG00000009337	1 retrocopy	retro_ptro_2186,
Xenopus tropicalis	ENSXETG00000014749	1 retrocopy	retro_xtro_17,