RetrogeneDB ID: retro_nleu_70

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397264.1:18814033..18814525(-)
• Located in intron of: ENSNLEG00000017313

Retrocopy information

• Ensembl ID: ENSNLEG00000018147
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: PPIF
• Ensembl ID: ENSNLEG00000010567
• Aliases: None
• Description: Peptidyl-prolyl cis-trans isomerase [Source:UniProtKB/TrEMBL;Acc:G1RI42]

Sequence

>retro_nleu_70
ATGGTTAACCCCACCATGTTCTTCGACATTGCTGTCAACAGCGAGCCTTCGGGCCATGTCTCCTTCAAGCTATTTGCAGA
CAAGGTTCCAAAGACAGCAGAAAACTTTCGTGCTCTGAGCACTGGAGAGAAAGGATTTGGTTATAAGGGTTCCTGCTTTC
ACAGAATTATTCCAGGGTTTATGTGTCAGGGTGGTGACTTCACACACCATAATGGCACTAGCGGCAAATCCATCTACGGG
GAGAAATTTGATGATGAGAACTTCATCCTAAAGCATACAGGTCCTGGCATCTTGTCCATGGCAAATGCTGGACCCAACAC
AAATGGTTCCCAGTTTTTCATCTGCACTGCCAAGACTGAGTGGTTGGATGGCAAGCATGTGGTCTTTGGCAAGGCGAAAG
AAGGCATGAATATTGTGGAGGCCATAGAGCACTTTGGGTCCAGGAATGGCAAGACCAGCAAGAAGATCACCACTGCTGAC
TGTGGACCACCC

Alignment

ORF - retro_nleu_70 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.12 %
• Parental protein coverage: 77.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NPLVYLDVGADGKPLGRVVLEVRPLAGPAWAQNFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNG
          NP....D......P.G.V.........P..A.NFRAL.TGEKGFGYKGS.FHR.IP.FMCQ.GDFT.HNG
Retrocopy NPTMFFDIAVNSEPSGHVSFKLFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTHHNG

Parental  TGGKSIYGSRFPDENFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTDWLDGKHVVFGHVKEGMDVVKKI
          T.GKSIYG..F.DENF.LKH.GPG.LSMANAGPNTNGSQFFICT.KT.WLDGKHVVFG..KEGM..V..I
Retrocopy TSGKSIYGEKFDDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKAKEGMNIVEAI

Parental  ESFGSKSGKTSKKIVITDCG
          E.FGS..GKTSKKI...DCG
Retrocopy EHFGSRNGKTSKKITTADCG

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_70 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 9 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000008796	3 retrocopies	retro_ecab_507, retro_ecab_649, retro_ecab_732,
Homo sapiens	ENSG00000108179	1 retrocopy	retro_hsap_1436,
Microcebus murinus	ENSMICG00000007086	8 retrocopies	retro_mmur_1266, retro_mmur_218, retro_mmur_515, retro_mmur_568, retro_mmur_605, retro_mmur_694, retro_mmur_769, retro_mmur_87,
Nomascus leucogenys	ENSNLEG00000010567	1 retrocopy	retro_nleu_70 ,
Procavia capensis	ENSPCAG00000009406	1 retrocopy	retro_pcap_275,
Pan troglodytes	ENSPTRG00000002669	1 retrocopy	retro_ptro_979,
Pteropus vampyrus	ENSPVAG00000001713	2 retrocopies	retro_pvam_380, retro_pvam_623,
Tupaia belangeri	ENSTBEG00000015457	1 retrocopy	retro_tbel_1906,
Xenopus tropicalis	ENSXETG00000018981	1 retrocopy	retro_xtro_20,