RetrogeneDB ID: retro_nleu_2175

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397333.1:12232060..12232805(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000003477
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: WASF2
• Ensembl ID: ENSNLEG00000009635
• Aliases: None
• Description: None

Sequence

>retro_nleu_2175
GACGATGGAAAAGAGGCACTCAAATTCTACACAGACCCTTCATACTTCTTTGATCTTTGGAAGAAGAAGATGCTGCAGGA
CACCAAGGATATCATGAAAGAGAAGAGAAAGCATAGGAAAGAAAAGAAAGATAATCCAAATCGAGGGAATGTAAACCCAC
GTAAAATCAAGACACATAAGGAAGAGTGGGAGAAAATTAAGATGGGGCAAGAATTTGTGGAGTCCAAAGAAAAGCTGGGG
CCTTCTGGGTATCCACCCACCTTGGTGTACCAGAATGGCAGCATTGGCTGTGTTGAAAACGTGGATGCAAGTAGCTATCC
ACCAACATCACAGTCAGACTCTGCTTCTTCACCTTCTCCTTCCTTCTCCGAGGACAACTTGCCTCCTCCACCAGCAGAAT
TCAGTTACCCAGTGGACAACCAAAGAGGATCTGGTTTGGCAGGACCCAAAAGATCCAGTGTGGTCAGCCCAAGCCATCCA
CCACCAGCTCCTCCGCTAGGCTCTCCACCAGGCCCTAAACCCGGTTTTGCTCCACCACCTGCCCCTCCACCACCTCCGCC
TCCAATGATAGGCATCCCACCTCCACCACTGCCTTAGGATTTGGGTCTCCAGGGACGCCTCCACCACCCTCACCCCCATC
TTTCCCACCTCACCCTGATTTTGCTGCCCCTCCACCTCCTCCCCACCACCGGCAGCTGACTACCCAACTCTGCCACCACC
TCCCTTGTCCCAGCCAACAGGAGGA

Alignment

ORF - retro_nleu_2175 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.84 %
• Parental protein coverage: 50.61 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DDGKEALKFYTDPSYFFDLWKEKMLQDTKDIMKEKRKHRKEKKDNPNRGNVNPRKIKTRKEEWEKMKMGQ
          DDGKEALKFYTDPSYFFDLWK.KMLQDTKDIMKEKRKHRKEKKDNPNRGNVNPRKIKT.KEEWEK.KMGQ
Retrocopy DDGKEALKFYTDPSYFFDLWKKKMLQDTKDIMKEKRKHRKEKKDNPNRGNVNPRKIKTHKEEWEKIKMGQ

Parental  EFVESKEKLGTSGYPPTLVYQNGSIGCVENVDASSYPPPPQSDSASSPSPSFSEDNLPPPPAEFSYPADN
          EFVESKEKLG.SGYPPTLVYQNGSIGCVENVDASSYPP..QSDSASSPSPSFSEDNLPPPPAEFSYP.DN
Retrocopy EFVESKEKLGPSGYPPTLVYQNGSIGCVENVDASSYPPTSQSDSASSPSPSFSEDNLPPPPAEFSYPVDN

Parental  QRGSGLAGPKRSSVVSPSHPPPAPPLGSPPGPKPGFAPPPAPPPPPPPMIGIPPPPPP-VGFGSPGTPPP
          QRGSGLAGPKRSSVVSPSHPPPAPPLGSPPGPKPGF............MIGIPPPP.P..GFGSPGTPPP
Retrocopy QRGSGLAGPKRSSVVSPSHPPPAPPLGSPPGPKPGFXXXXXXXXXXXXMIGIPPPPLP<LGFGSPGTPPP

Parental  PSPPSFPPHPDFAAPPPPP-PPPAADYPTLPPPPLSQPTGG
          PSPPSFPPHPDFAAPPPPP.PPPAADYPTLPPPPLSQPTGG
Retrocopy PSPPSFPPHPDFAAPPPPP<PPPAADYPTLPPPPLSQPTGG

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_2175 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000158195	1 retrocopy	retro_hsap_4682,
Gorilla gorilla	ENSGGOG00000004436	1 retrocopy	retro_ggor_2904,
Nomascus leucogenys	ENSNLEG00000009635	1 retrocopy	retro_nleu_2175 ,
Pongo abelii	ENSPPYG00000001661	1 retrocopy	retro_pabe_125,