RetrogeneDB ID: retro_nleu_3035

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397604.1:176788..178076(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM91A1
• Ensembl ID: ENSNLEG00000005385
• Aliases: None
• Description: None

Sequence

>retro_nleu_3035
TTGTTTGACTCCACTCTTACTGCCTTCTTAATGATGGGATATCTTTCACCAGTTCAGAGCACTGGTGAAGGAGAAGCACA
GAGTTATTTTGATCATGCACTTACTCTGAGAAACACAATACTGTTTCTGCGTCATAACAAAGATCTAGTTGCGCAAACTG
CACAGCCAGACCAACCCAATTATGGTTTTCCTCTGGATCTCTTATACTATGAAAGCCTTCTTGGTCCGGACCCTGCAACT
TGCAGCAGAGTTCTAAACAAAAATTATACACTGCTTGTTTCCATGGCTCCCCTCACCAATGAAATCCGGCCTGTCAGCAG
CTGCACCCCTCAGCATATTGGACCAGCTATCCCAGAAGTCAACTCTGTCTGGTTTAAACTGTGCATTTATCATATCACTG
GACAAGGACCACCATCCCTTTTATTGTCCAAAGGTACAAGACTTCAAAAACTGCCAGATATATTTCAGAGTTATGATCGA
TTGCTAATAACATCTTGGGGTCATGATCCTGGAGTAGTTCCTACCTCAAATGCGCCCACGATGTTGAATGATGCTTTAAC
ACATTCTGCAGTTTTAATTCAGGGGCATGATCTGCATGGGATAGGAGAAGCTGTCCATATCCCATTTCCATTTGATGAAA
CAGAACTACAAGGAGAGTTCACTCTTGTCAATATGGGTGTTCATAAAGCATTGCAGATACTAAGGAACAGAGTGGACTTA
CAACATCTCTGGGCGTATGTCACCATGTTGAATGCTTCCAGCCAACTTGCAAATAGAAAACTCAGTGATGCTTCTGATGA
GAGAGGAGAACCCGATTTAGCTTCTGGCTCAGATGTAAATGGGAGTACAGAGTCATTTCAAATGGTCATTGAGGAAGCAA
CTGTAGATTCAGCAACAAAGCAAACCTCTGGTGCCACAACAGAAGCAGATTCGGTTCCTCACTAGCTGTGCTTTGGAATT
CCACTGTTCAGTTCCAAATTAAACCAGAAAGTTTGCAGAAAAATTGCTACACATGGCCTTTGCAGAAAAGAGAGCCTTCA
AAACCTCTTACATTCCAGTAGAAAACTCTCTCTGCAAGTCCTTAACTTTATTCACTCATTCCAGGAAGGTGCTTCAACAT
TGGATATTCATACAGAGCCCAGTTTTTCAAGTTTGCTTTCACAGTCATCGGATGCTGACATGCGTGTTCCACGTCCTGCA
AAAAAACTTAATATTTAAAGATCGTGTCTTATCAGAAGGGAGTAGACGGTCACCTACCTCACTTCTTATTGCTAATCTCC
ATGTGCAA

Alignment

ORF - retro_nleu_3035 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.3 %
• Parental protein coverage: 50.95 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LSDESLDSFLIE--LEKVQSTGEGEAQRYFDHALTLRNTILFLRHNKDLVAQTAQPDQPSYGFPLDLLRC
          L.D..L..FL....L..VQSTGEGEAQ.YFDHALTLRNTILFLRHNKDLVAQTAQPDQP.YGFPLDLL..
Retrocopy LFDSTLTAFLMMGYLSPVQSTGEGEAQSYFDHALTLRNTILFLRHNKDLVAQTAQPDQPNYGFPLDLLYY

Parental  ESLLGLDPATCSRVLNKNYTLLVSMAPLTNEIRPVSSCTPQHIGPAIPEVSSVWFKLYIYHITGQGPPSL
          ESLLG.DPATCSRVLNKNYTLLVSMAPLTNEIRPVSSCTPQHIGPAIPEV.SVWFKL.IYHITGQGPPSL
Retrocopy ESLLGPDPATCSRVLNKNYTLLVSMAPLTNEIRPVSSCTPQHIGPAIPEVNSVWFKLCIYHITGQGPPSL

Parental  LLSKGTRLRKLPDIFQSYDRLLITSWGHDPGVVPTSNVLTMLNDALTHSAVLIQGHGLHGIGETVHVPFP
          LLSKGTRL.KLPDIFQSYDRLLITSWGHDPGVVPTSN..TMLNDALTHSAVLIQGH.LHGIGE.VH.PFP
Retrocopy LLSKGTRLQKLPDIFQSYDRLLITSWGHDPGVVPTSNAPTMLNDALTHSAVLIQGHDLHGIGEAVHIPFP

Parental  FDETELQGEFTRVNMGVHKALQILRNRVDLQHLCGYVTMLNASSQLANRKLSDASDERGEPDLASGSDVN
          FDETELQGEFT.VNMGVHKALQILRNRVDLQHL..YVTMLNASSQLANRKLSDASDERGEPDLASGSDVN
Retrocopy FDETELQGEFTLVNMGVHKALQILRNRVDLQHLWAYVTMLNASSQLANRKLSDASDERGEPDLASGSDVN

Parental  GSTESFEMVIEEATIDSTMKQTSGATTEADWVPLELCFGIPLFSSELNRKVCRKIATHGLCRKESLQNLL
          GSTESF.MVIEEAT.DS..KQTSGATTEAD.VP..LCFGIPLFSS.LN.KVCRKIATHGLCRKESLQNLL
Retrocopy GSTESFQMVIEEATVDSATKQTSGATTEADSVPH*LCFGIPLFSSKLNQKVCRKIATHGLCRKESLQNLL

Parental  HSSRKLSLQVLNFVHSFQEGASTLDIHTEPSFSSLLSQSSYADMGVPLPA-KNLIFKDGVLSEWSGRSPS
          HSSRKLSLQVLNF.HSFQEGASTLDIHTEPSFSSLLSQSS.ADM.VP.PA.KNLIFKD.VLSE.S.RSP.
Retrocopy HSSRKLSLQVLNFIHSFQEGASTLDIHTEPSFSSLLSQSSDADMRVPRPA>KNLIFKDRVLSEGSRRSPT

Parental  SLLIANLHLQ
          SLLIANLH.Q
Retrocopy SLLIANLHVQ

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_3035 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000176853	2 retrocopies	retro_hsap_225, retro_hsap_226,
Nomascus leucogenys	ENSNLEG00000005385	1 retrocopy	retro_nleu_3035 ,
Sus scrofa	ENSSSCG00000024424	2 retrocopies	retro_sscr_470, retro_sscr_507,
Tarsius syrichta	ENSTSYG00000004376	1 retrocopy	retro_tsyr_342,