RetrogeneDB ID: retro_nleu_2711

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397405.1:328146..328982(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000010745
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: LAP3
• Ensembl ID: ENSNLEG00000016606
• Aliases: None
• Description: None

Sequence

>retro_nleu_2711
AGACCCAGGTCTTGGATTGAGGAACAGGCAACGGGATCATTCCTCAGTGTGGCCAAAGGATCCGACGAACCCTCAGTCTT
CTTGGAAATTCACTACATAGGCAGCCCCAATGCAAACGAACCACCCTGGTGTTTGTTGGGAAAGGAATTACCTTCGACAG
TGGTGGTATCTCCATCAAGGCTTCTGCAAATATGGACCTCATGAGGGCCGACATGGGAGGAGCTACAACTATATGCTCAG
CCATTGTGTCTGCTGCAAAACTCAATTTGCCCATTAATATTATAGGTCTGGCCCGTCTTTGTGAAAATATGCCCTGCGGC
AAGGCCAGCAAGCTGGGGGATGTTGTTAGAGCCGGGAACGGGAAGACCATCCAGGTTGATAACACTGATGCCGACGGGAG
GCTCATACTGGCTGATGCGCTCTGTTACGCGCACACGTTTAACCCGAAGGTCATCCTCAATGCCACCACCTTAACAGGTG
CCATGGATGTAGCTTTGGGGTCAGGTACCACTGGGCTCTTTACCAATTCATCCTGGCTCTGGAACAAGCTCTTCGAGGCC
AGCATTGAAACAGGGGACCGTGTCTGGAGGATGCCTCTCTTCAAACATTATACAGGACAGGTTGTAGATTGCCAGCTGGC
TGATGTTAATAACATTGGAAAATATAGATTTGCGGAAGCATGTACATCTGCGGCATTCCTGAGAGAATTTGTGACTCATC
CTAAGTGGGCACATTTAGACATAGCAGGTGTGATGACCAACAAAGATGAGGTTCCCTATCTATGGAAAGGCACGACCGGG
AGGCCCACAAGGACTCTCATAGCGTTTCAGTCAAGA

Alignment

ORF - retro_nleu_2711 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.71 %
• Parental protein coverage: 53.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RPKSWIEEQAMGSFLSVAKGSDEPPVFLEIHYKGSPNANEPP-LVFVGKGITFDSGGISIKASANMDLMR
          RP.SWIEEQA.GSFLSVAKGSDEP.VFLEIHY.GSPNANEPP.LVFVGKGITFDSGGISIKASANMDLMR
Retrocopy RPRSWIEEQATGSFLSVAKGSDEPSVFLEIHYIGSPNANEPP<LVFVGKGITFDSGGISIKASANMDLMR

Parental  ADMGGAATICSAIVSAAKLNLPINIIGLAPLCENMPSGKANKPGDVVRAKNGKTIQVDNTDAEGRLILAD
          ADMGGA.TICSAIVSAAKLNLPINIIGLA.LCENMP.GKA.K.GDVVRA.NGKTIQVDNTDA.GRLILAD
Retrocopy ADMGGATTICSAIVSAAKLNLPINIIGLARLCENMPCGKASKLGDVVRAGNGKTIQVDNTDADGRLILAD

Parental  ALCYAHTFNPKVILNAATLTGAMDVALGSGATGVFTNSSWLWNKLFEASIETGDRVWRMPLFEHYTRQVV
          ALCYAHTFNPKVILNA.TLTGAMDVALGSG.TG.FTNSSWLWNKLFEASIETGDRVWRMPLF.HYT.QVV
Retrocopy ALCYAHTFNPKVILNATTLTGAMDVALGSGTTGLFTNSSWLWNKLFEASIETGDRVWRMPLFKHYTGQVV

Parental  DCQLADVNNIGKYRSAGACTAAAFLKEFVTHPKWAHLDIAGVMTNKDEVPYLRKGMTGRPTRTLIEFLLR
          DCQLADVNNIGKYR.A.ACT.AAFL.EFVTHPKWAHLDIAGVMTNKDEVPYL.KG.TGRPTRTLI.F..R
Retrocopy DCQLADVNNIGKYRFAEACTSAAFLREFVTHPKWAHLDIAGVMTNKDEVPYLWKGTTGRPTRTLIAFQSR

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_2711 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000004383	1 retrocopy	retro_cint_4,
Homo sapiens	ENSG00000002549	1 retrocopy	retro_hsap_3457,
Gorilla gorilla	ENSGGOG00000001110	1 retrocopy	retro_ggor_2333,
Nomascus leucogenys	ENSNLEG00000016606	1 retrocopy	retro_nleu_2711 ,
Pongo abelii	ENSPPYG00000014626	1 retrocopy	retro_pabe_2858,
Pan troglodytes	ENSPTRG00000015938	1 retrocopy	retro_ptro_2344,
Rattus norvegicus	ENSRNOG00000003289	1 retrocopy	retro_rnor_1332,
Tursiops truncatus	ENSTTRG00000006175	1 retrocopy	retro_ttru_1013,