RetrogeneDB ID: retro_nleu_1624

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397301.1:7701199..7702843(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: SUPT16H
• Ensembl ID: ENSNLEG00000014392
• Aliases: None
• Description: None

Sequence

>retro_nleu_1624
ATGGCTGTGACTCTGGACAAAGATGCTTATTATCGTTGAGTGAAGAGATTGTACAGCAATTGGCAGAAAGGAGAAGATGA
GTATGCCAACGTTGATGCCATTGTTGTATCAGTGGGTGTTGATGAAGAAATTGTTTATGCCAAATCAACTGTGTTACAGA
CATGGCCCTTTGGTTACGAACTAACTGATACTAACACGGTCTTTTGTGATGACAAAATTGTCTTTATGGCCAGCAAGAAA
AAAGTGGAGTTTTTGAAACAGATTGCCAACACTAAGGGCAATGAGAATGCTAGTGGAGCCCCTGCATCACACTGCTGATA
CGAGAAAAGAATGAAAGTAGTAAGAGTAGCTTTGACAAAATGATTGAAGCCATTAAAGAAAGCAAGAATGGCAAAAAGAT
TGGAGTGTTCAGCAAAGACAAATTCCCTGGAGAGTTCATGAAGAGCTGGAATGACTGCCTCAACAAAGAAGGCTTTGACA
AAATAGATATCAGTGCAGTTGTGGCATATGCCATGGCTGTAAAGGAGGATGGGGAGCTCAAATTAATGAAGAAAGCAGCC
AGCATCACTTCTGAAGCCTTCAACAAATTCTTCAAGGAAAGAGTCATGGAAATAGTTGATGCAGATGAGAAAGTTCGACA
CAGCAAACTGGCTGAGTCTGTGGAAAAGGCCATTGAAGAGAAACAATACCTTGCTGGGGCAGACCCTTCTACTGTGGAAA
TGTGTTACCCTCCTATCATTCAGAGTGGTGGCAACTATAACCTTAAGTTCAGTGTGGTGAGTGACAAGAATCATATGCAT
TTTGGGGCTACCACTTGTGCCATGGGTATTCACTTCAAGTCTTACTGCTCCAACCTGTTCACACTTTGATGGTTGATCCT
TCTCAGGAAGTTCAAGAAAATTACAATATTTTACTCCAGCTTCAAGAGGAGCTGCTGAAGGAATTAAGACATGGTGTTAA
GATATATGATGTATATAACGCTGTCATGGACGTGGTTAAAAAGCAGAAGCCAGAACTCCTGAACAGAATTACCAAAAACC
TAGGATTTGGGATGGGAATTGAATTCCGTGAAGGCTCCCTAGTAATCAATAGCAAAAGTCAATACAAACTGAAGACAGGA
GTGGTTTTCAGCATCAGTTTGGGATTCTTGGACCTGACTAACAAGGAGGGGAAAAAGCCAGAAAAGAAAACCTATGCCCC
GTTCCTTAGTGACACAGTGCTTATGGATGAGGATGGCCCAGCTACTGTTCTCACTTCTGTGAAGAAGAAGGTGAAGAATG
TGGGGATATTCCTAAAGAACCAAGATGAGGAAGAAGAGGAAGAGAGAAAGAGGCAGAGAACCTTTTGGGAAGAGGTTCTC
GGGCAGCGTTACTTACAGAAAGAATAAGAAATGAAATGACGGCAGAAGAGAAACGAAGAGCACATCAAAAAGAACTAGCG
GCTCAACTCAATGAAGAAGCAAAGAGGAGATTGACTGAACAAAGGGGAGAACAGCAGATTCAGAAAGCTCACAAATCTAG
TGTGTCCTATAAAAACCCATCTCTGATGCCTAAGGAACCACATATTTGGGAAATGAAGATCTACATCGATAAGAAATATA
AGACTGTAATAATGCCTGTTTGGCATTGCAACACGTTTTCACAT

Alignment

ORF - retro_nleu_1624 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.32 %
• Parental protein coverage: 52.53 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAVTLDKDAYYRRVKRLYSNWRKGEDEYANVDAIVVSVGVDEEIVYAKSTALQTWLFGYELTDTIMVFCD
          MAVTLDKDAYYR.VKRLYSNW.KGEDEYANVDAIVVSVGVDEEIVYAKST.LQTW.FGYELTDT..VFCD
Retrocopy MAVTLDKDAYYR*VKRLYSNWQKGEDEYANVDAIVVSVGVDEEIVYAKSTVLQTWPFGYELTDTNTVFCD

Parental  DKIIFMASKKKVEFLKQIANTKGNENANGAPA-ITLLIREKNESNKSSFDKMIEAIKESKNGKKIGVFSK
          DKI.FMASKKKVEFLKQIANTKGNENA.GAPA.ITLLIREKNES.KSSFDKMIEAIKESKNGKKIGVFSK
Retrocopy DKIVFMASKKKVEFLKQIANTKGNENASGAPA<ITLLIREKNESSKSSFDKMIEAIKESKNGKKIGVFSK

Parental  DKFPGEFMKSWNDCLNKEGFDKIDISAVVAYTIAVKEDGELTLMKKAASITSEVFNKFFKERVMEIVDAD
          DKFPGEFMKSWNDCLNKEGFDKIDISAVVAY..AVKEDGEL.LMKKAASITSE.FNKFFKERVMEIVDAD
Retrocopy DKFPGEFMKSWNDCLNKEGFDKIDISAVVAYAMAVKEDGELKLMKKAASITSEAFNKFFKERVMEIVDAD

Parental  EKVRHSKLAESVEKAIEEKKYLAGADPSTVEMCYPPIIQSGGNYNLKFSVVSDKNHMHFGAITCAMGIRF
          EKVRHSKLAESVEKAIEEK.YLAGADPSTVEMCYPPIIQSGGNYNLKFSVVSDKNHMHFGA.TCAMGI.F
Retrocopy EKVRHSKLAESVEKAIEEKQYLAGADPSTVEMCYPPIIQSGGNYNLKFSVVSDKNHMHFGATTCAMGIHF

Parental  KSYCSNL-VRTLMVDPSQEVQENYNFLLQLQEELLKELRHGVKICDVYNAVMDVVKKQKPELLNKITKNL
          KSYCSNL.V.TLMVDPSQEVQENYN.LLQLQEELLKELRHGVKI.DVYNAVMDVVKKQKPELLN.ITKNL
Retrocopy KSYCSNL<VHTLMVDPSQEVQENYNILLQLQEELLKELRHGVKIYDVYNAVMDVVKKQKPELLNRITKNL

Parental  GFGMGIEFREGSLVINSKNQYKLKKGMVFSINLGFSDLTNKEGKKPEEKTYALFIGDTVLVDEDGPATVL
          GFGMGIEFREGSLVINSK.QYKLK.G.VFSI.LGF.DLTNKEGKKPE.KTYA.F..DTVL.DEDGPATVL
Retrocopy GFGMGIEFREGSLVINSKSQYKLKTGVVFSISLGFLDLTNKEGKKPEKKTYAPFLSDTVLMDEDGPATVL

Parental  TSVKKKVKNVGIFLKNEDEEEEEE-EKDEAEDLLGRGSRAALLTERTRNEMTAEEKRRAHQKELAAQLNE
          TSVKKKVKNVGIFLKN.DEEEEEE.EK.EAE.LLGRGSRAALLTER.RNEMTAEEKRRAHQKELAAQLNE
Retrocopy TSVKKKVKNVGIFLKNQDEEEEEE<EK-EAENLLGRGSRAALLTERIRNEMTAEEKRRAHQKELAAQLNE

Parental  EAKRRLTEQKGEQQIQKARKSNVSYKNPSLMPKEPHIREMKIYIDKKYETVIMPVFGIATPFH
          EAKRRLTEQ.GEQQIQKA.KS.VSYKNPSLMPKEPHI.EMKIYIDKKY.TVIMPV....T..H
Retrocopy EAKRRLTEQRGEQQIQKAHKSSVSYKNPSLMPKEPHIWEMKIYIDKKYKTVIMPVWHCNTFSH

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_1624 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000092201	1 retrocopy	retro_hsap_1089,
Gorilla gorilla	ENSGGOG00000002243	1 retrocopy	retro_ggor_857,
Nomascus leucogenys	ENSNLEG00000014392	1 retrocopy	retro_nleu_1624 ,
Pan troglodytes	ENSPTRG00000006122	1 retrocopy	retro_ptro_741,