RetrogeneDB ID: retro_nleu_1591

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397300.1:5640999..5641930(-)
• Located in intron of: None

Retrocopy information

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

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_1591
ATGACGGACTACCTGATCAGCGGCAGCACCGGCTACGTGCCCCAGGATGGGCTCACTGCGCCCCAGCTCTTCGCCAGCGC
TGACGGCCTCACCTACAACGACTTCCTGATTCTCCCAGGATTCATAGACTTCATAGCTGATGAGGTGGACCTGACCTCAG
CCCTGACCCAGAGGGTCACGCCGAAGACGCCGCTGATCTCCTCCCCTATGGACACTGTGACAGAGGCCGACATGGCCATC
GCGATAGCTCTGATGGGAGGTATTGGTTTCATTCACCGCAACTGCACCGCAGAGTTCCAGGCCAACGAGGTGCAGAAGAT
CAAGTTTGAACAGGGCTTCATCACGGACCCCGTGGTGCTGAGCCCCTGGCACACTGTGAGTGATGTGCTGGAGGCCAAGA
TGCGGCATGGCTTCTCTGGCATCCCCATCACTAGACGGGCACCATGGGCAGCAAGCTGGTGGGCATCGTCACCTCCCGAG
ACACTGACTTTCTTGCTGAGAAGGACACCACCACCCTCCTCAGTGAGGTGATGACGCCAAGGATTGAGCTGGTGGTGGCT
CCAGCAGGTGTGACGTTGAAAGAAGCAAAAGAGATCCTAAGTGTAGCAAGAAAGGGAAGCTGCCTGTTGGCAATGATCAC
GATAAACTGGTGGCCATCATCGCCCACACTGACGTGAAGAAGAACCGAGACTACCCTCTGGCCTCCAAGGATTCCCACAA
GCAGCTGCTGTGCGGGGCAGCCGTGGGCACCCGTGAGGATGACAAATACTGCCTGGACCTGCTCTCCCAGGTGGGCGTCA
ACGTATAGTCCAAACTCGTCCCAGGGAACTCGGCATATCAGATCACCATGGTGCATTACATCAAACAAAAGTATCTCCAC
CTCCAGGTGATTGGGGAGAACATGGTGCCAGCAGCCCAGGCCAAGAACCTG

Alignment

ORF - retro_nleu_1591 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.4 %
• Parental protein coverage: 60.89 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MADYLISGGTSYVPDDGLTAQQLFNCGDGLTYNDFLILPGYIDFTADQVDLTSALTKKITLKTPLVSSPM
          M.DYLISG.T.YVP.DGLTA.QLF...DGLTYNDFLILPG.IDF.AD.VDLTSALT...T.KTPL.SSPM
Retrocopy MTDYLISGSTGYVPQDGLTAPQLFASADGLTYNDFLILPGFIDFIADEVDLTSALTQRVTPKTPLISSPM

Parental  DTVTEAGMAIAMALTGGIGFIHHNCTPEFQANEVRKVKKYEQGFITDPVVLSPKDRVRDVFEAKARHGFC
          DTVTEA.MAIA.AL.GGIGFIH.NCT.EFQANEV.K..K.EQGFITDPVVLSP...V.DV.EAK.RHGF.
Retrocopy DTVTEADMAIAIALMGGIGFIHRNCTAEFQANEVQKI-KFEQGFITDPVVLSPWHTVSDVLEAKMRHGFS

Parental  GIPITD-TGRMGSRLVGIISSRDIDFLKEEEHDCFLEEIMTKREDLVVAPAGITLKEANEIL-QRSKKGK
          GIPIT..TG.MGS.LVGI..SRD.DFL.E......L.E.MT.R..LVVAPAG.TLKEA.EIL...SKKGK
Retrocopy GIPITR<TGTMGSKLVGIVTSRDTDFLAEKDTTTLLSEVMTPRIELVVAPAGVTLKEAKEIL<KCSKKGK

Parental  LPIVNEDDELVAIIARTDLKKNRDYPLASKDTKKQLLCGAAIGTHEDDKYRLDLLAQAGVDV--VVLDSS
          LP..N..D.LVAIIA.TD.KKNRDYPLASKD..KQLLCGAA.GT.EDDKY.LDLL.Q.GV.V........
Retrocopy LPVGNDHDKLVAIIAHTDVKKNRDYPLASKDSHKQLLCGAAVGTREDDKYCLDLLSQVGVNV*SKLVPGN

Parental  QGNSIFQINMIKYIKEKYPNLQVIGGNVVTAAQAKNL
          ....I.....IK....KY..LQVIG.N.V.AAQAKNL
Retrocopy SAYQITMVHYIK---QKYLHLQVIGENMVPAAQAKNL

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_1591 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,