RetrogeneDB ID: retro_nleu_1280

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397287.1:27490329..27491538(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018742
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PTEN
• Ensembl ID: ENSNLEG00000012141
• Aliases: None
• Description: None

Sequence

>retro_nleu_1280
ATGACAGCCATCATCAAAGAGATCGTTAGCAGAAACAAAAGGAGATACCAAGAGGATGGATTCGACTTAGACTTGACCTA
TATTTATCCAAACATTATTGCTATGGGATTTCCTGCAGAAAGACTTGAAGGCGTATACAGGAACAATATTGATGATGTAG
TAAGGTTTTTGGATTCAAAGCATAAAAACCATTACAAGATATACAATCTTTGTGCTGAAAGACATTATGACACCGCCAAA
TTTAATTGCAGAGTTGCACAATATCCTTTTGAAGACCATAACCCACCACGGCTAGAACTTATCAAACCCTTTTGTGAAGA
TCTTGACCAATGGCTAAGTGAAGATGACAATCATGTTGCGGCAATTCACTGTAAAGCTGGAAAGGGACGAACTGGTGTAA
TGATTTGTGCATATTTATTACATCGGGGCAAATTTTTAGAGGCACAAGAGGCCCTAGATTTCTATGGGGAAGTAAGGACC
AGAGACAAAAAGGGAGTAACTATTCCCAGTCAGAGGCGCTATGTGTATTATTATAGCTACCTGTTAAAGAATCATCTGGA
TTATAGACCAGTGGCACTGTTGTTTCACAAGATGATGTTTGAAACTATTCCAGTGTTCAATGGCGGAACTTGCAATCCTC
AGTTTGTGGTCTGCCAGCTAAAGGTGAAGATATATTCCTCCAATTCGGGACCCACACGATGGGAAGACAAGTTCATGTAC
TTTGAGTTCCCTCAGCCGTTACCTGTGTGTGGTGATATCAAAGTAGAGTTCTTCCACAAACAGAACAAGATGCTAAAAAA
GGACAAAATGTTTCACTTTTGGGTAAATACATTCTTCATACCAGGAACAGAGGAAACCTCAAAAAAAGTAGAAAATGGAA
GTGTATGTGATCAAGAAATTGATAGCATTTGCAGTATAGAGCGTGCAGATAATGACAAGGACTATCTAGTACTTACTTTA
ACAAAAAATGATCTTGACAAAGCAAATAAAGACAAAGCCAACCGATACTTTTCTCCAAATTTTAAGGTGAAGCTGTACTT
CACAAAAACAGTAGAGGAGCCGTCAAATCCAGAGGCTAGCAGTTCAACTTCTGTAACACCAGATGTTAGTGACAATGAAC
GTGATCATTATAGATATTCTGACACCACTGACTCTGATCCAGAGAATGAAGCTTTTGATGAAGATCAGCATACACAAATT
ACAAAAGTC

Alignment

ORF - retro_nleu_1280 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.27 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTAIIKEIVSRNKRRYQEDGFDLDLTYIYPNIIAMGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNL
          MTAIIKEIVSRNKRRYQEDGFDLDLTYIYPNIIAMGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNL
Retrocopy MTAIIKEIVSRNKRRYQEDGFDLDLTYIYPNIIAMGFPAERLEGVYRNNIDDVVRFLDSKHKNHYKIYNL

Parental  CAERHYDTAKFNCRVAQYPFEDHNPPQLELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTGVMICAYLL
          CAERHYDTAKFNCRVAQYPFEDHNPP.LELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTGVMICAYLL
Retrocopy CAERHYDTAKFNCRVAQYPFEDHNPPRLELIKPFCEDLDQWLSEDDNHVAAIHCKAGKGRTGVMICAYLL

Parental  HRGKFLKAQEALDFYGEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPMFSGGT
          HRGKFL.AQEALDFYGEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIP.F.GGT
Retrocopy HRGKFLEAQEALDFYGEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPVFNGGT

Parental  CNPQFVVCQLKVKIYSSNSGPTRREDKFMYFEFPQPLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNTFFI
          CNPQFVVCQLKVKIYSSNSGPTR.EDKFMYFEFPQPLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNTFFI
Retrocopy CNPQFVVCQLKVKIYSSNSGPTRWEDKFMYFEFPQPLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNTFFI

Parental  PGPEETSEKVENGSLCDQEIDSICSIERADNDKEYLVLTLTKNDLDKANKDKANRYFSPNFKVKLYFTKT
          PG.EETS.KVENGS.CDQEIDSICSIERADNDK.YLVLTLTKNDLDKANKDKANRYFSPNFKVKLYFTKT
Retrocopy PGTEETSKKVENGSVCDQEIDSICSIERADNDKDYLVLTLTKNDLDKANKDKANRYFSPNFKVKLYFTKT

Parental  VEEPSNPEASSSTSVTPDVSDNEPDHYRYSDTTDSDPENEPFDEDQHTQITKV
          VEEPSNPEASSSTSVTPDVSDNE.DHYRYSDTTDSDPENE.FDEDQHTQITKV
Retrocopy VEEPSNPEASSSTSVTPDVSDNERDHYRYSDTTDSDPENEAFDEDQHTQITKV

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_1280 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009252	1 retrocopy	retro_chof_578,
Homo sapiens	ENSG00000171862	1 retrocopy	retro_hsap_4245,
Gorilla gorilla	ENSGGOG00000000893	1 retrocopy	retro_ggor_2846,
Nomascus leucogenys	ENSNLEG00000012141	1 retrocopy	retro_nleu_1280 ,
Pongo abelii	ENSPPYG00000002448	1 retrocopy	retro_pabe_3393,
Sarcophilus harrisii	ENSSHAG00000003709	1 retrocopy	retro_shar_828,
Sus scrofa	ENSSSCG00000010440	2 retrocopies	retro_sscr_236, retro_sscr_237,