RetrogeneDB ID: retro_nleu_704

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397270.1:12457571..12458573(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000015955
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: LGMN
• Ensembl ID: ENSNLEG00000017162
• Aliases: None
• Description: None

Sequence

>retro_nleu_704
GATTACACTGCAGAGGATGTTACCCCACAAAATTTCCTTGCTGTGCTGAGAGCCGATGCAGAAGCAGTGAAGGGCATAGG
ATCCGGGAAAGTCCTGAAGAGCAGCCCCCAGGATCGTGTATGTGCTCGTTGACTTCACTGACCATGGATCTACTGGAATA
CTGGTTTTCCCCAATGAAGATCTTCATGTAAAGTACCTGAATGAGACCATCCATTACATATACATACATAAAATGTACCA
AAAGATGGTGTTCTATATTGAAGCCTGTGAGTCTGGGTCCATGATGAACCACCTGCCTGGTGACACTAATGTTTATGCAA
CTACTGCTGCCAACCCCAGAGAGTCGTCCTACACCTGTTACTATGATAAGAAGAGATCGACGTACCTGGGGGACTGGTAC
AGCGTCAACTGGATGGAAGACTCGGACGTGGAAGATCTGACTAACAAGACCCTGCGCAAGCAGTACCACCTGGTAAAATC
ACACACCAATACCAGCCACATCATGCAGTACCGAAATGAAACGATCTCCACCATGAAAGTGATGCAGTTTCAGAGTATGA
AACACAAAGCCAGTTCTCCTATCTCCCTGCCTCCAGTCACACACCTTGACCTCAATCCCCAGCCCTTATGTGCCCCTCAT
GATCATGAAAAGGAAACTGATGAACACCATCGATCTGGAGGACTCCAGGCAGCTCACAGAGGAGATCCAGCGGCATCTGG
ATGCCAGGCACCTCATTGAGAAGGCAGTGCGCAAGATCGCCTCCTTGTGGGCAGCGTCCGAGGCTGAGGTGGAGCACCTC
CTGCCTGAGAGAGCCCCCATTCATGGGGCATAGCTGCTACCTGGAGGCCCCGCTGCACTTCCAGACCCACTGCTTCAACT
GGCACTCCCCCACGTGCGAGTATGCGTTGAGACATTTGTACGTGCTGGCCAACCTGTGTGAGAAACCGTATCCGCTTCAC
AGGATAAAATTGTCCATGGACCACGTGTGCCTTGGTCGCTAC

Alignment

ORF - retro_nleu_704 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.52 %
• Parental protein coverage: 77.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DYTGEDVTPQNFLAVLRGDAEAVRGKGSGKVL-KSGPQD-HVFVYFTDHGSTGILVFPNEDLHVKDLNET
          DYT.EDVTPQNFLAVLR.DAEAV.G.GSGKVL....P....V.V.FTDHGSTGILVFPNEDLHVK.LNET
Retrocopy DYTAEDVTPQNFLAVLRADAEAVKGIGSGKVL>RAAPRIVYVLVDFTDHGSTGILVFPNEDLHVKYLNET

Parental  IHYMYKHKMYQKMVFYIEACESGSMMNHLPDNINVYATTAANPRESSYACYYDEKRSTYLGDWYSVNWME
          IHY.Y.HKMYQKMVFYIEACESGSMMNHLP...NVYATTAANPRESSY.CYYD.KRSTYLGDWYSVNWME
Retrocopy IHYIYIHKMYQKMVFYIEACESGSMMNHLPGDTNVYATTAANPRESSYTCYYDKKRSTYLGDWYSVNWME

Parental  DSDVEDLTKETLHKQYHLVKSHTNTSHVMQYGNKTISTMKVMQFQGMKHKASSPLSLPPVTHLDLT-PSP
          DSDVEDLT..TL.KQYHLVKSHTNTSH.MQY.N.TISTMKVMQFQ.MKHKASSP.SLPPVTHLDL..PSP
Retrocopy DSDVEDLTNKTLRKQYHLVKSHTNTSHIMQYRNETISTMKVMQFQSMKHKASSPISLPPVTHLDLN>PSP

Parental  DVPLTIMKRKLMNTNDLEESRQLTEEIQRHLDARHLIEKSVRKIVSLLAASEAGVEQLLSERAPL-TGHS
          .VPL.IMKRKLMNT.DLE.SRQLTEEIQRHLDARHLIEK.VRKI.SL.AASEA.VE.LL.ERAP...GHS
Retrocopy YVPLMIMKRKLMNTIDLEDSRQLTEEIQRHLDARHLIEKAVRKIASLWAASEAEVEHLLPERAPI>MGHS

Parental  CYPEALLHFRTHCFNWHSPTYEYALRYLYVLVNLCEKPYPLHRIKLSMDHVCLGHY
          CY.EA.LHF.THCFNWHSPT.EYALR.LYVL.NLCEKPYPLHRIKLSMDHVCLG.Y
Retrocopy CYLEAPLHFQTHCFNWHSPTCEYALRHLYVLANLCEKPYPLHRIKLSMDHVCLGRY

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_704 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000008256	1 retrocopy	retro_ggor_999,
Nomascus leucogenys	ENSNLEG00000017162	1 retrocopy	retro_nleu_704 ,