RetrogeneDB ID: retro_ttru_1665

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_84300:44889..46317(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IMPDH2
• Ensembl ID: ENSTTRG00000017349
• Aliases: None
• Description: IMP (inosine 5'-monophosphate) dehydrogenase 2 [Source:HGNC Symbol;Acc:6053]

Sequence

>retro_ttru_1665
CACAGAGATTTACTGATTCTCTGAGGATTCACAGCTGATGAGGTGGACCTGATTTCAGCCCTGACTTGGAAGATCATGCT
GAAGACGCCACTCATCTCCTCCCCCATGGACACTGTGACAGAGGCTGACGTGGCCATCGCAATGGCTCTGATGGGCGGTA
TCGGTTTCATTCACCAAAACTGCACTCCAGAGTTCCAGGCCAACAAGGTCGGAAGGTCAAGGAGTTTGAACAGGGCTTCA
TCACGGACCCTGTGGTGCTGAGACCCTCACACACCATAGGCAAGGCACTGGAGGCCAAGATCCAGCATGGCTTCTCCGGC
ATCCCCATCACTGAGACGGGCACCAGCAAGCTGGTGGGTGTCGTCACCTCCCAAGACATCGACTCCCTCACCGAGAAGGA
CCACACACCCTCCTCAGTGAGGTGATGACACCGTGGAATGAGCTGGTGGTGGCTCTAGTGGGTATGACACTGAAAGAGGC
AAATGAGATCCTGCAGCACAGCAAGAAAAGGAAGCTGCCCATTGTTAATGATCAAGACGAGCTAGTGGCCATCATTGCCC
GCACTGACCTGAAGAAGAACCAGGATTACCCTCTGGCCTCCAAGGATTCCCACAAACAGCTGCTGTGTGGGGCGGCCATG
GGTACCCATGAGGATGACAAATACCACCTGGACCTGCTCACCCAGGCGAGTGCCGACGTCATAGTGCTGAACTCATCCCA
AGGGGACGCTGTGTATCAGATCACCATGGTGCACCACATCAAGCAGAAGTACCCCCACCTCCAGGTGACTGGGGGAAATG
TGACAGCAGCTCAGGCCAAGAACCTGATTGACGCTGGTGTGGACGGGCTGCGTGTGGGCATGGGCTGTGGCTCCATCTGC
ATCACCCAAGAAGAAGGGATGGCCTGTCGTCGTCCCCAGGGCACTGCCACGTACAAGGCGGCTGAGTACACCCGGCGCTT
CGGGGTGCCAGTCATAGCCGATGGTGGCATCCAGACCGTGGAGCATGTGGTCAAGGCCCTGGCCCCTGGAGCTTCCACAG
TGATGATGGGCTCCCTGCTCGCCACCACCATGGAGGCCCCTGGAGAGTACTTCTTCCCGGATGGCGTGAGGCTCAAGAAG
TCCCGGGGCGTGAGCTCGCTGGACACCATGGAGAAGAACAGCAGCAGCTAGAAGCGCTACTTCAGCGAGGGAGATAAGGT
GAAGGTCATGCGGGGCGTCGCGCGCTCCATCCAGGACAAAGGCTCCATTCAGAAGTTCGTGCCCTACCTCACAGTGGGAT
CCAGCACGGCTGCCACGATTTTGGTGCCCGTAGCCTGTCTGTCCTGAGGTCCATGTACTCAGGAGAGCTCAAGTTTGAGA
AGCAGACCATGTCAGCTCAGATGAAGGGTGGTGTCCACGGCCTGCACTCTTACGAGAAGCGGCTGTAC

Alignment

ORF - retro_ttru_1665 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.25 %
• Parental protein coverage: 93.97 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  YNDFLILPGYIDFTADQVDLTSALTKKITLKTPLVSSPMDTVTEAGMAIAMALTGGIGFIHHNCTPEFQA
          ..D.LIL.G...FTAD.VDL.SALT.KI.LKTPL.SSPMDTVTEA..AIAMAL.GGIGFIH.NCTPEFQA
Retrocopy HRDLLIL*G---FTADEVDLISALTWKIMLKTPLISSPMDTVTEADVAIAMALMGGIGFIHQNCTPEFQA

Parental  NEV-RKVKKYEQGFITDPVVLSPKDRVRDVFEAKARHGFCGIPITDTGRMGSRLVGIISSRDIDFLKEEE
          N.V.RKVK..EQGFITDPVVL.P........EAK..HGF.GIPIT.TG...S.LVG...S.DID.L.E..
Retrocopy NKV<RKVKEFEQGFITDPVVLRPSHTIGKALEAKIQHGFSGIPITETGT--SKLVGVVTSQDIDSLTEKD

Parental  HD-RFLGEIMTKREDLVVAPAGITLKEANEILQLSKKGKLPIVNEDDELVAIIARTDLKKNRDYPLASKD
          H....L.E.MT....LVVA..G.TLKEANEILQ.SKK.KLPIVN..DELVAIIARTDLKKN.DYPLASKD
Retrocopy HT<TLLSEVMTPWNELVVALVGMTLKEANEILQHSKKRKLPIVNDQDELVAIIARTDLKKNQDYPLASKD

Parental  AKKQLLCGAAIGTHEDDKYRLDLLAQAGVDVVVLDSSQGNSIFQINMIKYIKEKYPSLQVIGGNVVTAAQ
          ..KQLLCGAA.GTHEDDKY.LDLL.QA..DV.VL.SSQG....QI.M...IK.KYP.LQV.GGN.VTAAQ
Retrocopy SHKQLLCGAAMGTHEDDKYHLDLLTQASADVIVLNSSQGDAVYQITMVHHIKQKYPHLQVTGGN-VTAAQ

Parental  AKNLIDAGVDALRVGMGSGSICITQEV-LACGRPQATAVYKVSEYARRFGVPVIADGGIQNVGHIAKALA
          AKNLIDAGVD.LRVGMG.GSICITQE...AC.RPQ.TA.YK..EY.RRFGVPVIADGGIQ.V.H..KALA
Retrocopy AKNLIDAGVDGLRVGMGCGSICITQEEGMACRRPQGTATYKAAEYTRRFGVPVIADGGIQTVEHVVKALA

Parental  LGASTVMMGSLLAATTEAPGEYFFSDGIRLKKYRGMGSLDAMDKHLSSQNRYFSEADKIKVAQGVSGAVQ
          .GASTVMMGSLLA.T.EAPGEYFF.DG.RLKK.RG..SLD.M.K..SS..RYFSE.DK.KV..GV....Q
Retrocopy PGASTVMMGSLLATTMEAPGEYFFPDGVRLKKSRGVSSLDTMEKNSSS*KRYFSEGDKVKVMRGVARSIQ

Parental  DKGSIHKFVPYLI-AGIQHSCQDIGAKSLTQVRAMMYSGELKFEKRTSSAQVEGGVHSLHSYEKRLF
          DKGSI.KFVPYL...GIQH.C.D.GA.SL...R..MYSGELKFEK.T.SAQ..GGVH.LHSYEKRL.
Retrocopy DKGSIQKFVPYLT<SGIQHGCHDFGARSLSVLRS-MYSGELKFEKQTMSAQMKGGVHGLHSYEKRLY

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_1665 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1665 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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 9 parental genes, and 16 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,
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 ,