RetrogeneDB ID: retro_nleu_915

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397276.1:30210787..30212083(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000005763
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SUCLG2
• Ensembl ID: ENSNLEG00000007553
• Aliases: None
• Description: None

Sequence

>retro_nleu_915
ATGGCGTCCCCCGTGGCAGCGCAGGCATGGGAGCTTCTGCGAGCCGTAGCGCTGCCGCCCCGCTTCATGGCGGCCAGGTC
CCGGGCAGTTCAATTAACCTCCTGAAGACGGCTGAGGCTGCAGGAATACCAGAGCAAGAAACTGATGTCTGATAACAGTG
TGAGAGTTCAAAGATTCTTTGTAGCAGACACTGCGAATGAAGCTCTCAAGGCTGCTAAGAGACTAAATGCAAAAGAAATT
GTTTTAAAAGCCCAGATCTTAGCTGGAGGAAGAGGAAAAGGTGTCTTCAATAGTGATTTGAAAGGAGGCGTTCATTTAAC
AAAAGACCCTAATGTTGTGGGACAGCTGGCTAAACAGATGATTGGTTACAATCTAGCGACAAAACAAACTCCAAAAGAAG
GTGTGAAAGTTAACAAGGTGATGGTTGCTGAAGCCTTGGACATTTCCAGAGAAACCTACCTGGCAATCCTGATGGACCGG
TCCTGCAATGGCCCCGTGCCGGTGGGCAGCCCCCAGGAGGGCGTCGACATTGAAGAGGTGGCTGCTTCAAACCCAGAGCT
CATTTTTAAGGAGCAAATTGACATTTTTGAAGGAATAAAGGACAGCCAAGCTCAGCGGATGGCAGAAAATCTAGGCTTCG
TTGGGCCTTTGAAAAGCCAGGCTGCAGATCAAATTACGAAGCTGTATAATCTCTTCCTGAAAATTGGTGCTACTCAGGTA
GAAGTGAATCCCTTTGGTGAAACTCCAGAGGGACAAGTTGTCTGTTTTGATGCCACGATAAACTTTGGTGACAACGCAGA
ATTCCAACAAAAAGACATATTTGCTATGGACGACAAATCAGAGAATGAGCCCATTGAAAATGAAGCTGCCAAATATGATC
TAAAATACATAGGACTAGATGGGAACATTGCCTGCTTTGTGAATGGTGCTGGGCTTGCCATGGCTACTTGTGATATCATT
TTCCTTAATGGTGGGAAGCCAGCCAACTTCTTGGATCTTGGAGGTGGTGTAAAGGAAGCTCAAGTATATCAAGCATTCAA
ATTGCTCACAGCTGATCCTAAGGTTGAAGTCATCCTTGTCAATATTTTTGGTGGTATCGTCAACTGTGCCATCATTGCCA
ATGGGGTCACCAAAGCCTGCCAGGAGCTAGAACTCAAGGTGCCCCTGGTGGTTCGGCTTGAAGGAACCAACGTCCAAGAG
GCCCAGAAAATACTCAACGACAGCAGACTCCCCATTACTTCAGCCGTTGACCTGGAGGATGCAGCCAAGAAGGCTGTGGC
CATTGTGGCTAAGAAG

Alignment

ORF - retro_nleu_915 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.28 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASPVAAQAGKLLRALALRPRFLAAESQAVQLTSRRWLNLQEYQSKKLMSDNGVRVQRFFVADTANEALE
          MASPVAAQA..LLRA.AL.PRF.AA.S.AVQLTS.R.L.LQEYQSKKLMSDN.VRVQRFFVADTANEAL.
Retrocopy MASPVAAQAWELLRAVALPPRFMAARSRAVQLTS*RRLRLQEYQSKKLMSDNSVRVQRFFVADTANEALK

Parental  AAKRLNAKEIVLKAQILAGGRGKGVFNSGLKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV
          AAKRLNAKEIVLKAQILAGGRGKGVFNS.LKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV
Retrocopy AAKRLNAKEIVLKAQILAGGRGKGVFNSDLKGGVHLTKDPNVVGQLAKQMIGYNLATKQTPKEGVKVNKV

Parental  MVAEALDISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDIFEGIKDSQAQRMAEN
          MVAEALDISRETYLAILMDRSCNGPV.VGSPQ.GVDIEEVAASNPE................QAQRMAEN
Retrocopy MVAEALDISRETYLAILMDRSCNGPVPVGSPQEGVDIEEVAASNPEXXXXXXXXXXXXXXXXQAQRMAEN

Parental  LGFVGPLKSQAADQITKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAMDDKS
          LGFVGPLKSQAADQITKLYNLFLKI.ATQVEVNPFGETPEGQVVCFDA.INF.DNAEF.QKDIFAMDDKS
Retrocopy LGFVGPLKSQAADQITKLYNLFLKIGATQVEVNPFGETPEGQVVCFDATINFGDNAEFQQKDIFAMDDKS

Parental  ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT
          ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT
Retrocopy ENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLDLGGGVKEAQVYQAFKLLT

Parental  ADPKVEAILVNIFGGIVNCAIIANGITKACRELELKVPLVVRLEGTNVQEAQKILNNSGLPITSAIDLED
          ADPKVE.ILVNIFGGIVNCAIIANG.TKAC.ELELKVPLVVRLEGTNVQEAQKILN.S.LPITSA.DLED
Retrocopy ADPKVEVILVNIFGGIVNCAIIANGVTKACQELELKVPLVVRLEGTNVQEAQKILNDSRLPITSAVDLED

Parental  AAKKAVASVAKK
          AAKKAVA.VAKK
Retrocopy AAKKAVAIVAKK

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_915 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000172340	1 retrocopy	retro_hsap_1044,
Gorilla gorilla	ENSGGOG00000027438	1 retrocopy	retro_ggor_825,
Myotis lucifugus	ENSMLUG00000017294	1 retrocopy	retro_mluc_695,
Macaca mulatta	ENSMMUG00000009693	2 retrocopies	retro_mmul_1273, retro_mmul_1995,
Mus musculus	ENSMUSG00000061838	1 retrocopy	retro_mmus_3720,
Nomascus leucogenys	ENSNLEG00000002948	3 retrocopies	retro_nleu_1963, retro_nleu_2140, retro_nleu_2302,
Nomascus leucogenys	ENSNLEG00000007553	1 retrocopy	retro_nleu_915 ,
Otolemur garnettii	ENSOGAG00000006190	1 retrocopy	retro_ogar_161,
Pongo abelii	ENSPPYG00000013735	1 retrocopy	retro_pabe_2624,
Pteropus vampyrus	ENSPVAG00000004554	1 retrocopy	retro_pvam_912,