RetrogeneDB ID: retro_ttru_681

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3064:443133..444206(-)
• Located in intron of: ENSTTRG00000015375

Retrocopy information

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

Parental gene information

• Parental gene symbol: DLST
• Ensembl ID: ENSTTRG00000001915
• Aliases: None
• Description: dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex) [Source:HGNC Symbol;Acc:2911]

Sequence

>retro_ttru_681
CTTGCAGAAGGTGAAGTGGTTTGTGAGGTTGAAACTGACAAGGCATCTGTGCAGGTTCCATCACCAGCAAATGGCACGAC
TGAAGCTCTTTTGGTACCTGATGGGGGGAAAGTAGAAGGAGGCACTCCTCTTTTCACACTCAGGAAAACTGGCACTGCTC
CTGCTAAGGCCAAGCCAGCCGAAGCTCCTGCTGCCACAGCCCGAAAAGCAGAACCTGCAGCGTCGGCAGTTCCTCCTCCC
CCTGCAGCATCCAAACCCACTCAGATGCCACCAGTGCCCTCGCCCTCACAACCTCTCACTAGCAAACCAGCGTCTGCCGT
AAAACCCACTGCTGCCCCTGCAGTAGCTGAGCCAGGAGCTGGCACAGGTCTGCGTCCAGAACATCGGGAGAAAGTGGATA
GGATGCGGCAGCGCATTGCTCAGCATCTAAAGGAGGCTCAGAATACCTGAGCAGCGCTTACCACTTTCAGTGAGATTGAC
ATGAGTAACACCCAGGAGATGAGGGCTCGGCACAAAGATGCTTTTCTGAAGAAACATAACCTCACACTAGGCTTCATGTC
AGCATTCGTGAAGGCCTCGGCCTGTGCCTGGAAGCAGCAGCCTGTTGTAAATGCAGCGATTGACGATACAACCGAAGAGG
TGGTGTATAGGGATTATATTGACATCAGCGTTGCGGTGGCCACCCCTCGGGGTCTGGTGCTTCCGGTCATCAGGAATGTG
GAAACTAGGAATTATGCCGATATTGAGCGAACCATCAGTGAACTAGGAGAGAAGGCCCGGAAGAATGAACTTGCCATTGA
AGATATGGATGGTGGTACCTTCACCGTCAGCAACGGAGGCGTTTGGGCTCGCTCTTTGGAACGCCCATCATCAACCCCCC
TCAGTCTGCCATCCTGGGCATGCACGCCATCTTTGATAGGCCAGTGGTCGTGGGAGGCAAATTGGAGATGCAGCCTATAA
TGTACGTGACCCTGACGTATGATCACCGGCTGATGGATGGCAGAGAGGCCGTGACTTTCCTCCGCAAAATCAAGGCAGCG
GTAGAGGATCCCAGAGACCTCCTATTGGACCTG

Alignment

ORF - retro_ttru_681 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.74 %
• Parental protein coverage: 78.68 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VAEDEVVCEIETDKTSVQVPSPANGMIEALLVPDGGKVEGGTPLFTLRKTGAVPAKARPAEAPAAAAPKA
          .AE.EVVCE.ETDK.SVQVPSPANG..EALLVPDGGKVEGGTPLFTLRKTG..PAKA.PAEAPAA.A.KA
Retrocopy LAEGEVVCEVETDKASVQVPSPANGTTEALLVPDGGKVEGGTPLFTLRKTGTAPAKAKPAEAPAATARKA

Parental  EPAASAVPPPPAASIPTQMPPVPSPSQPLTSKPVSAIKPTAAPPVAEPGAGTGLRSEHREKMNRMRQRIA
          EPAASAVPPPPAAS.PTQMPPVPSPSQPLTSKP.SA.KPTAAP.VAEPGAGTGLR.EHREK..RMRQRIA
Retrocopy EPAASAVPPPPAASKPTQMPPVPSPSQPLTSKPASAVKPTAAPAVAEPGAGTGLRPEHREKVDRMRQRIA

Parental  QRLKEAQNTCAMLTTFNEIDMSNIQEMRSRHRDAFLKKHNLKLGFMSAFVKASAFALQEQPVVNAVIDDT
          Q.LKEAQNT.A.LTTF.EIDMSN.QEMR.RH.DAFLKKHNL.LGFMSAFVKASA.A...QPVVNA.IDDT
Retrocopy QHLKEAQNT*AALTTFSEIDMSNTQEMRARHKDAFLKKHNLTLGFMSAFVKASACAWKQQPVVNAAIDDT

Parental  TKEVVYRDYIDISVAVATPRGLVVPVIRNVETMNYADIERTISELGEKARKNELAIEDMDGGTFTISNGG
          T.EVVYRDYIDISVAVATPRGLV.PVIRNVET.NYADIERTISELGEKARKNELAIEDMDGGTFT.SNGG
Retrocopy TEEVVYRDYIDISVAVATPRGLVLPVIRNVETRNYADIERTISELGEKARKNELAIEDMDGGTFTVSNGG

Parental  VF-GSLFGTPIINPPQSAILGMHAIFDRPVVVGGKVEVRPMMYVALTYDHRLIDGREAVTFLRKIKAAVE
          V..GSLFGTPIINPPQSAILGMHAIFDRPVVVGGK.E..P.MYV.LTYDHRL.DGREAVTFLRKIKAAVE
Retrocopy VW<GSLFGTPIINPPQSAILGMHAIFDRPVVVGGKLEMQPIMYVTLTYDHRLMDGREAVTFLRKIKAAVE

Parental  DPRVLLLDL
          DPR.LLLDL
Retrocopy DPRDLLLDL

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_681 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_681 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000009316	1 retrocopy	retro_cpor_1089,
Homo sapiens	ENSG00000119689	1 retrocopy	retro_hsap_407,
Gorilla gorilla	ENSGGOG00000011591	1 retrocopy	retro_ggor_403,
Nomascus leucogenys	ENSNLEG00000016330	1 retrocopy	retro_nleu_1006,
Oryctolagus cuniculus	ENSOCUG00000015606	1 retrocopy	retro_ocun_322,
Pan troglodytes	ENSPTRG00000006543	1 retrocopy	retro_ptro_312,
Tursiops truncatus	ENSTTRG00000001915	1 retrocopy	retro_ttru_681 ,
Xenopus tropicalis	ENSXETG00000013264	1 retrocopy	retro_xtro_46,