RetrogeneDB ID: retro_nleu_2183

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397333.1:4420837..4422379(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000001433
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: IMPDH2
• Ensembl ID: ENSNLEG00000006743
• Aliases: None
• Description: Inosine-5'-monophosphate dehydrogenase [Source:UniProtKB/TrEMBL;Acc:G1R4U5]

Sequence

>retro_nleu_2183
ATGGCGGACTACCTCATCAGCGGCGGCACCCGCTACGTGCCCGAGGATGGGCTCACCGCACAGCAGCTCTTCGCCAGCGA
CGACGGCCTCACCTACAACGATTTCCTGATTCTCCCAGGATTCATAGACTTCCTAGCTGGTGAGGTGGACCTGACCTCAG
CCCTGACCCGGAAGATCACGCTGAAGACACCACTGATCTCCTTTCCCACCGACACTGTGATAGAGGCCGACATGGCCATC
GCGATGGCTCTGATGGGAGGTATTGGTTTCATTCACCACAACTGCACCCCAGAGTTCCAGGCCAACAAGGTGCAGAAGGT
CAAGAAGTTTGAACAGGGCTTCATCACAGATCCTGTGGTGCTGAGCCCCTCGCACACTGTGGGTGATGTGCTGGAGGCCA
AGATGCGGCATGGCTTCTCTGGCATCCCCATCACTGAGACGGGCACCATGGGCAGCAAGCTGGTGGGCATCGTCACCTCC
CGAGACATCGACTTCCTTGCTGAGAAGGACCACACCACCCTCCTCAGTGAGGTGATGACGCCAAGGATGGAGCTAGTGGT
GGCTCCAGCAGGCGTGACGTTCAAAGAGGCAAATGAGATCCTGCAGCATAGCAAGAAAGGGAAGCTACCTGTTGTCAATG
ATCATGATGAGCTGGTGGCCATCATCGCCCGCACCGACCTGAAGAAGCACCGAGACTACCCTCTGGCCTCCAAGGATTCC
CACAAGCAGCTGCTGTGCGGGGCAGTTGTGGGTACCTGTGAAGATGACAAATTCCGCCTTGACCTGCTCACCCAGGCGGG
CGTCGATGTCATAGTCTTGGACTCGTCCCAAGGGAACTTGGTGTATCAGATCGCCATGGTGCATTACATCAAACAGAAGT
ACCCCCACCTCCAGGTGATTGGGGGGAACGTGGTGACAGCAGCCCAGGCCAAGAACCTGATTGACGCTGGTGTGGATGGG
CTGCACGTGGGCATGGGCTGCGGCTCCATCTGCATCACCCCGGAAGTGATGGCCTGTGGTCGGACCCACGGCACTGCTGT
GTACAAGGTGGCCGAGTATGCCCGGCGTTTTGGTGTGCCCATCATAGCCGATGGCGGCATCCAGACCGTGGGGCACGTGG
TCAAGGCCCTGGCCCTTGGAGCCTCCACAGTGATGATGGGCTCCCTGCTGGCCGCCACCACGGAGGCCTCCGGTGAATAC
TTCTTCTCAGATGGGGTGCCGCTCAAGAAGAATCGGGGCATGGGCTCGCTGGATGCCATGGAGAAGAGCAGCAGCAGCCA
GAAACGATACTTCAGCGAGGGGGATAAGGTGAAGTTCGCGCAGAGTATCTCGGGCTCCATCCAGGACAAAGGGTCCATTC
AGAAGTTCGTGCCCTACCTCATAGCGGGCATCCAGCACAGTTGCCAGGATATCGGGGCCCGAAGCCTGGCTGTCCTTCGG
TCCATGATGTACTCAGGAGAGCTCAAGTTTGAGAAACGGACCGTGTCAGCCCAGATCGAGGGTGGCGTCCATGGCCTGCA
CTCTTACGAGAAGCGGCTGTAC

Alignment

ORF - retro_nleu_2183 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.96 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MADYLISGGTSYVPDDGLTAQQLFNCGDGLTYNDFLILPGYIDFTADQVDLTSALTKKITLKTPLVSSPM
          MADYLISGGT.YVP.DGLTAQQLF...DGLTYNDFLILPG.IDF.A..VDLTSALT.KITLKTPL.S.P.
Retrocopy MADYLISGGTRYVPEDGLTAQQLFASDDGLTYNDFLILPGFIDFLAGEVDLTSALTRKITLKTPLISFPT

Parental  DTVTEAGMAIAMALTGGIGFIHHNCTPEFQANEVRKVKKYEQGFITDPVVLSPKDRVRDVFEAKARHGFC
          DTV.EA.MAIAMAL.GGIGFIHHNCTPEFQAN.V.KVKK.EQGFITDPVVLSP...V.DV.EAK.RHGF.
Retrocopy DTVIEADMAIAMALMGGIGFIHHNCTPEFQANKVQKVKKFEQGFITDPVVLSPSHTVGDVLEAKMRHGFS

Parental  GIPITDTGRMGSRLVGIISSRDIDFLKEEEHDCFLEEIMTKREDLVVAPAGITLKEANEILQRSKKGKLP
          GIPIT.TG.MGS.LVGI..SRDIDFL.E..H...L.E.MT.R..LVVAPAG.T.KEANEILQ.SKKGKLP
Retrocopy GIPITETGTMGSKLVGIVTSRDIDFLAEKDHTTLLSEVMTPRMELVVAPAGVTFKEANEILQHSKKGKLP

Parental  IVNEDDELVAIIARTDLKKNRDYPLASKDTKKQLLCGAAIGTHEDDKYRLDLLAQAGVDVVVLDSSQGNS
          .VN..DELVAIIARTDLKK.RDYPLASKD..KQLLCGA..GT.EDDK.RLDLL.QAGVDV.VLDSSQGN.
Retrocopy VVNDHDELVAIIARTDLKKHRDYPLASKDSHKQLLCGAVVGTCEDDKFRLDLLTQAGVDVIVLDSSQGNL

Parental  IFQINMIKYIKEKYPNLQVIGGNVVTAAQAKNLIDAGVDALRVGMGSGSICITQEVLACGRPQATAVYKV
          ..QI.M..YIK.KYP.LQVIGGNVVTAAQAKNLIDAGVD.L.VGMG.GSICIT.EV.ACGR...TAVYKV
Retrocopy VYQIAMVHYIKQKYPHLQVIGGNVVTAAQAKNLIDAGVDGLHVGMGCGSICITPEVMACGRTHGTAVYKV

Parental  SEYARRFGVPVIADGGIQNVGHIAKALALGASTVMMGSLLAATTEAPGEYFFSDGIRLKKYRGMGSLDAM
          .EYARRFGVP.IADGGIQ.VGH..KALALGASTVMMGSLLAATTEA.GEYFFSDG..LKK.RGMGSLDAM
Retrocopy AEYARRFGVPIIADGGIQTVGHVVKALALGASTVMMGSLLAATTEASGEYFFSDGVPLKKNRGMGSLDAM

Parental  DKHLSSQNRYFSEADKIKVAQGVSGAVQDKGSIHKFVPYLIAGIQHSCQDIGAKSLTQVRAMMYSGELKF
          .K..SSQ.RYFSE.DK.K.AQ..SG..QDKGSI.KFVPYLIAGIQHSCQDIGA.SL...R.MMYSGELKF
Retrocopy EKSSSSQKRYFSEGDKVKFAQSISGSIQDKGSIQKFVPYLIAGIQHSCQDIGARSLAVLRSMMYSGELKF

Parental  EKRTSSAQVEGGVHSLHSYEKRLF
          EKRT.SAQ.EGGVH.LHSYEKRL.
Retrocopy EKRTVSAQIEGGVHGLHSYEKRLY

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_2183 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 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000009844	1 retrocopy	retro_fcat_1377,
Homo sapiens	ENSG00000178035	1 retrocopy	retro_hsap_697,
Gorilla gorilla	ENSGGOG00000013245	1 retrocopy	retro_ggor_594,
Mus musculus	ENSMUSG00000062867	1 retrocopy	retro_mmus_3158,
Nomascus leucogenys	ENSNLEG00000006743	7 retrocopies	retro_nleu_1126, retro_nleu_1371, retro_nleu_1378, retro_nleu_1591, retro_nleu_2183 , retro_nleu_2188, retro_nleu_359,
Nomascus leucogenys	ENSNLEG00000012341	1 retrocopy	retro_nleu_2508,
Pongo abelii	ENSPPYG00000013884	1 retrocopy	retro_pabe_528,
Pan troglodytes	ENSPTRG00000014908	1 retrocopy	retro_ptro_501,
Rattus norvegicus	ENSRNOG00000031965	1 retrocopy	retro_rnor_1523,
Tursiops truncatus	ENSTTRG00000017349	2 retrocopies	retro_ttru_1148, retro_ttru_1665,