RetrogeneDB ID: retro_nleu_2331

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397344.1:6508942..6509443(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000008047
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RNF126
• Ensembl ID: ENSNLEG00000000828
• Aliases: None
• Description: None

Sequence

>retro_nleu_2331
CTCCCCACGCTAGAAGGGATCATCCAGCAGCTCGTCAACGGCATCATCACGCCCGCCACCATCCCCAGCCTGGGTCCTTG
GGGAGTCCTTCACTCAAACCCTGTGGATTACGCCTGAGTGGCCAACGGGCTGGACGCCTTCGCACAGCTCCTCAATCAGT
TTGAAAACACGGGCCCCCCACCCGCAGATGAAGAGAAAATCCAGTCCCTCCCCACCGCCCCCGTCACCGATGAGCACGTA
GGCTCCGGGCCCGAGCGCCCCGTGTGCAAGGACGACTACGCGCTGGGCGAGCAGCTGCCCTGCAACCCACCTGTTCCACG
ATGGCTGCATTGTGCACCGGCTGGAGCAGCACCACAGCTGCCCCGTCTGCAGAAAAAGCCTCCCGGGACACAACACGGCC
ACGAACACCCCCGCCCCCGGCCCGACTGGGATGAGCTGCTCCTCTTCGTCGTCCTCCCCCTCCTCCAGCTCGCCCAGCAA
CGAGACGCCACAAGTAACTCC

Alignment

ORF - retro_nleu_2331 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.08 %
• Parental protein coverage: 54.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VPTLEGIIQQLVNGIITPATIPSLGPWGVLHSNPMDYAWGANGLDAIITQLLNQFENTGPPPADKEKIQA
          .PTLEGIIQQLVNGIITPATIPSLGPWGVLHSNP.DYA..ANGLDA...QLLNQFENTGPPPAD.EKIQ.
Retrocopy LPTLEGIIQQLVNGIITPATIPSLGPWGVLHSNPVDYA*VANGLDAF-AQLLNQFENTGPPPADEEKIQS

Parental  LPTVPVTEEHVGSGLECPVCKDDYALGERVRQLPCN-HLFHDGCIVPWLEQHDSCPVCRKSLTGQNTATN
          LPT.PVT.EHVGSG.E.PVCKDDYALGE...QLPCN.HLFHDGCIV..LEQH.SCPVCRKSL.G.NTATN
Retrocopy LPTAPVTDEHVGSGPERPVCKDDYALGE---QLPCN>HLFHDGCIVHRLEQHHSCPVCRKSLPGHNTATN

Parental  --PPGLTGVSFSSSSSSSSSSSPSNE-NATSNS
          ...PG.TG.S.SSSSSS.SSSSPSNE..ATSNS
Retrocopy TPAPGPTGMSCSSSSSSPSSSSPSNE<DATSNS

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_2331 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014349	1 retrocopy	retro_btau_1457,
Homo sapiens	ENSG00000070423	1 retrocopy	retro_hsap_1770,
Nomascus leucogenys	ENSNLEG00000000828	1 retrocopy	retro_nleu_2331 ,