RetrogeneDB ID: retro_ttru_1148

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105734:89093..90632(-)
• 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_1148
ATGGCCGACTACCTGAGAGCGGCGGCACATCCTACATGCCAGACGATAGACTCGCTGCACAGCAGCTGTTCAACTGCACG
GACAGTCTCACCTACAGCGACTTTCTCATTCTCCCCGGGTACGTCGACTTCACTGCAGACCAAGTGGACCTGACCTCTGC
TCTGACTAAAAATATCACTCTGAAGACCCCACTGGTTTCCTCACCCATGGACACAGTCACAGAGGCTGGGATGGCCATAG
TAATGGCGCTTACAGGCGGTATTGGCTTCACCCACTACAACTGTACATCAGAATTCCAGGCCAATGAAGTTCGTGAAGTG
AAGAAATATGAGCAGGGATTCATCATGGACCCTGTGGTCCTCAGTCCCAAGGATCGAGTGTGGGATGTCTTTGAAGCCAA
GGCCGGCATGGCTTCTGTGGTATCCCCATCACTGACACAGGCCGGATGGGGAGCCACCTGGTGGGCATCATCTCCTTAAG
GGACATTGATTTTCTCAAGGAGGAGGAGCATGACCGGTTTTTGGGAGCGATCTTGATGAAGAGGGAAGACTTGGTGGTAG
CCCCTGCAGGCATCACATTGAAGGAAGCAAATGAAATTCTGCAGCACAGCGAGAAGGGAAAGTTACCCATTGTAAATGAA
GATGATAAGCTGGTTGCCATCATTGCCCAGACAGACCTGAAGAAAAACCGAGATTACCCACTGGCCTCGAAAGATGCCAA
GAAGCAGCTGCTGTGTGGAGCAGCCATCGGCACTCATGAGGATGACAAGTATCAGCTGGACTGCCTAGTCCAGGCTGGTG
TGGACGTGATGGTTTTGGACTCTTCCCAGGGAAACTCCGTCTTCCAGATCAACATGATCAAATACATCAAAGAGAAATAC
CCCAGTCTCCAAGTCATTGGAGGCAATGTGGTCACAGCTGCTCAGGCCAAGAACCTCACTGATGCTGGTGTAGATGCCCT
GAGGGTGGGAATGGGCAGTGGCTCCATCTGCATCACTCAAGAAGTGCTGGCCTGTGGGCGGCCCCAATCAACAGCAGCGT
ACAACGTGTGAGAATATGCACGGTGCTTTGACGTCCCTGTCATTGCTGATGGAGGGATCCAAAATGTGGGCCATATTGCC
AAAGCTTTGGCCCTTGGGGTCTCCACAGTTATGATGGGCTCCCTCCTGGCTGTTACCACTGAAGCCCCTGGCAAGTTTTC
TTCTCTGATGGGATCCAGCTAAAGAAATATCATGGTATGGGTTCTCTCGATGCCATGGACAAGCATCTCAGCAGCCAGAA
CCGATACTTCAGTGAAGCTGACAAAATCAAGGTGGCCCAGGGGCTGTCTGGGGCTGTGCAGGATAAAGGATCCATGCACA
GATTTGTTTCCTACCTGATTGCCGGCATCTAGCACTCCTGCCAGGACATCGGTGCCAAGAGTTCGACCCAAGTCCAAGCC
ATGATGTATTCTGGAGAGCTCAAGTTTGAGAAGGGAACATCCTCAGCTCAGGTGGAAGGTGGTGTCCACAGCCTCCACTC
ATATGAGAAGCGTCTTTTC

Alignment

ORF - retro_ttru_1148 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.56 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MADYLI-SGGTSYVPDDGLTAQQLFNCGDGLTYNDFLILPGYIDFTADQVDLTSALTKKITLKTPLVSSP
          MADYL..SGGTSY.PDD.L.AQQLFNC.D.LTY.DFLILPGY.DFTADQVDLTSALTK.ITLKTPLVSSP
Retrocopy MADYLR<SGGTSYMPDDRLAAQQLFNCTDSLTYSDFLILPGYVDFTADQVDLTSALTKNITLKTPLVSSP

Parental  MDTVTEAGMAIAMALTGGIGFIHHNCTPEFQANEVRKVKKYEQGFITDPVVLSPKDRVRDVFEAKA-RHG
          MDTVTEAGMAI.MALTGGIGF.H.NCT.EFQANEVR.VKKYEQGFI.DPVVLSPKDRV.DVFEAKA.RHG
Retrocopy MDTVTEAGMAIVMALTGGIGFTHYNCTSEFQANEVREVKKYEQGFIMDPVVLSPKDRVWDVFEAKA<RHG

Parental  FCGIPITDTGRMGSRLVGIISSRDIDFLKEEEHDRFLGEIMTKREDLVVAPAGITLKEANEILQLSKKGK
          FCGIPITDTGRMGS.LVGIIS.RDIDFLKEEEHDRFLG.I..KREDLVVAPAGITLKEANEILQ.S.KGK
Retrocopy FCGIPITDTGRMGSHLVGIISLRDIDFLKEEEHDRFLGAILMKREDLVVAPAGITLKEANEILQHSEKGK

Parental  LPIVNEDDELVAIIARTDLKKNRDYPLASKDAKKQLLCGAAIGTHEDDKYRLDLLAQAGVDVVVLDSSQG
          LPIVNEDD.LVAIIA.TDLKKNRDYPLASKDAKKQLLCGAAIGTHEDDKY.LD.L.QAGVDV.VLDSSQG
Retrocopy LPIVNEDDKLVAIIAQTDLKKNRDYPLASKDAKKQLLCGAAIGTHEDDKYQLDCLVQAGVDVMVLDSSQG

Parental  NSIFQINMIKYIKEKYPSLQVIGGNVVTAAQAKNLIDAGVDALRVGMGSGSICITQEVLACGRPQATAVY
          NS.FQINMIKYIKEKYPSLQVIGGNVVTAAQAKNL.DAGVDALRVGMGSGSICITQEVLACGRPQ.TA.Y
Retrocopy NSVFQINMIKYIKEKYPSLQVIGGNVVTAAQAKNLTDAGVDALRVGMGSGSICITQEVLACGRPQSTAAY

Parental  KVSEYARRFGVPVIADGGIQNVGHIAKALALGASTVMMGSLLAATTEAPGEY-FFSDGIRLKKYRGMGSL
          .V.EYAR.F.VPVIADGGIQNVGHIAKALALG.STVMMGSLLA.TTEAPG...FFSDGI.LKKY.GMGSL
Retrocopy NV*EYARCFDVPVIADGGIQNVGHIAKALALGVSTVMMGSLLAVTTEAPGKF<FFSDGIQLKKYHGMGSL

Parental  DAMDKHLSSQNRYFSEADKIKVAQGVSGAVQDKGSIHKFVPYLIAGIQHSCQDIGAKSLTQVRAMMYSGE
          DAMDKHLSSQNRYFSEADKIKVAQG.SGAVQDKGS.H.FV.YLIAGI.HSCQDIGAKS.TQV.AMMYSGE
Retrocopy DAMDKHLSSQNRYFSEADKIKVAQGLSGAVQDKGSMHRFVSYLIAGI*HSCQDIGAKSSTQVQAMMYSGE

Parental  LKFEKRTSSAQVEGGVHSLHSYEKRLF
          LKFEK.TSSAQVEGGVHSLHSYEKRLF
Retrocopy LKFEKGTSSAQVEGGVHSLHSYEKRLF

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_1148 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1148 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,