RetrogeneDB ID: retro_nleu_115

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397283.1:12801968..12802901(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018598
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MED27
• Ensembl ID: ENSNLEG00000012828
• Aliases: None
• Description: None

Sequence

>retro_nleu_115
ATGGCGGACGTGATAAATGTCAGTGTGAACCTGGAGGCCTTTTCCCAGGCCATTAGTGCCATCCAGGCGCTGCGCTCCAG
CGTGAGCAGGGTGTTCGACTGCCTGAAGGATGTGATGCGGAACAAGGAGACGCTGGAGGGCCGGGAGAAGGCCTTCATTG
CGCACTTCCAGGACAACTTACGTTCGGTCAACCGGGACCTCAATGAGCTGGAACGTCTGAGCAATCTGGTAGGCAAGCCA
TCTGAGAACCATCCTCTTCATAACAGTGGGCTGTTAAGCCTGGATCCTGTGCAGGACGAAACTCCTCTCTATAGTCAACT
CCTTCAAGCACATAAGTGGTCAAACAAGTTGCAGTACCATGTAGGACTAGCATCTGGCCTTTTAAATCAGCAGTCGTTGA
AGCGTTCCGCTAATCAGATGGGAGTATCTGCCAAACGTAGACCAAAGGCTCAGCCCACAACTCTTGTCCTACCACCTCCA
TATGTTGATGATATGATCAGCTGCATTGACAGGATGTTTCCTGAAATGTCCATCCACTTATCCAGACCCAATGGAACATC
AGCAGTGCTTCTGGTGACCTTGGGAAAGGTGTTGAAAGTGATCGTCCTCATGCGGAGCCTGTTCATTGATCGAACAATAG
TAAAGGGATATAACGAGAATGCCTACAAAGAAGATGGCAAACTTGATATATGGTCCAAATCCAACTATCAAGTATTCCAG
AAGGTGACAGACCATGCCACCACTGCCCCGCTCCACTATCAGCTGCCCCAGATGCCGGATGTCGTGGTCCGATCCTTCAT
GACCTGGTTAAGAAGTTACATAAAGCTGTTCCAGGCCCCGTGCCAGCGCTGCGGGAAGTTTCTGCAGGACGGCCTTCCCC
CGACATGGAGGGATTTCCGAACCCTCGAAGCCTTCCATGACACCTGCCGGCAG

Alignment

ORF - retro_nleu_115 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.82 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNLHSVNRDLNEL
          MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKD.MRNKETLEGREKAFIAHFQDNL.SVNRDLNEL
Retrocopy MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDVMRNKETLEGREKAFIAHFQDNLRSVNRDLNEL

Parental  ERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYHAGLASGLLNQQSLKRSANQM
          ERLSNLVGKPSENHPLHNSGLLSLDPVQD.TPLYSQLLQA.KWSNKLQYH.GLASGLLNQQSLKRSANQM
Retrocopy ERLSNLVGKPSENHPLHNSGLLSLDPVQDETPLYSQLLQAHKWSNKLQYHVGLASGLLNQQSLKRSANQM

Parental  GVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHLSRPNGTSAMLLVTLGKVLKVIVVMRSLFID
          GVSAKRRPKAQPTTLVLPP.YVDD.IS.IDRMFPEMSIHLSRPNGTSA.LLVTLGKVLKVIV.MRSLFID
Retrocopy GVSAKRRPKAQPTTLVLPPPYVDDMISCIDRMFPEMSIHLSRPNGTSAVLLVTLGKVLKVIVLMRSLFID

Parental  RTIVKGYNENVYTEDGKLDIWSKSNYQVFQKVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAP
          RTIVKGYNEN.Y.EDGKLDIWSKSNYQVFQKVTDHATTA.LHYQLPQMPDVVVRSFMTWLRSYIKLFQAP
Retrocopy RTIVKGYNENAYKEDGKLDIWSKSNYQVFQKVTDHATTAPLHYQLPQMPDVVVRSFMTWLRSYIKLFQAP

Parental  CQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
          CQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
Retrocopy CQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ

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_115 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000160563	1 retrocopy	retro_hsap_3342,
Gorilla gorilla	ENSGGOG00000010390	1 retrocopy	retro_ggor_130,
Loxodonta africana	ENSLAFG00000011556	1 retrocopy	retro_lafr_931,
Myotis lucifugus	ENSMLUG00000000364	1 retrocopy	retro_mluc_243,
Nomascus leucogenys	ENSNLEG00000012828	1 retrocopy	retro_nleu_115 ,
Pongo abelii	ENSPPYG00000019706	1 retrocopy	retro_pabe_109,
Pan troglodytes	ENSPTRG00000021492	1 retrocopy	retro_ptro_87,