RetrogeneDB ID: retro_tsyr_52

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_1331:31011..32241(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENO3
• Ensembl ID: ENSTSYG00000007066
• Aliases: None
• Description: enolase 3 (beta, muscle) [Source:HGNC Symbol;Acc:3354]

Sequence

>retro_tsyr_52
ACTATCGAGGTTTTTCTCTACACCCTGAAATGTCTCTTCAGAGCCGCTGTGCCCAGTGGTGCCTCAGCTGGTATCTATGA
GGCCCTAGAGATCCAGGACAATGATGAGACTCACAGTATGGGGAAGGGTGTCTCAGAGGCTGTTGAGCACATCAATAAAA
CTATTGCGCCTGCCCTGGTTAGCAAGAAACTGAATGTCTTGGAGCAGGAGATCGACAAACTGATGATTGAGACGGATGGG
ATGCATAAGTTTGGTGCAGACGCCATTCTGGGGGTGTCCCTTGCTGTCTGCAAAGTTGGTGCTATTGATAAGGGCGTTCC
CCTGTACCGCCACATCGCTGACTTGGCTGGGAGCTCTGAGGTCGTCCTGCCAGTCTCAGCCTTCAATGTCATCAACAGTG
GTTCTTACGCTGGCAGCGAGCTGGCCATACAGCAAGTCATGATCTTCCCTGGCACGGCAGCAAACTTCAGGGAAGTCGTG
CGCGTTGGGCAGAAGTCTCCCACAGCCTGAAGAGTACCGTCAAGGAGAAATACAGCAACGATGGAACCAACCTGGTGGAC
GAAGGCCGGTTTGCGCCCAGCGTCCTGGAGCATAAGGAAGGCCTGGAGCTGCTGAAGACCATGATTGGGAAGGTGGTCCA
CACAGACAAGGCGGTCATCAGCATGGACGTGGCCGCCTCCAAGTTCTTCAGGTCTGGGAAGTATGACCTGGACTTCAAGT
CTCCTGATGACCCCCGTAGGTACATCTCATCTGACCAGCTGGCCGACCTGTACAAGTCCTTCATCAAGGACTACTCTGTG
GCGTCCATCAAAGACCCCTTCAAGCCGGACAACTGGGTCACTTGGCAGAAGTCCACGGCCAGTGCTGGGATCCAGGTGGT
GGAAGGTGATCTCACAGTGACCAACCCTAAGCACGTCAGCAAGGCCATGGGCGAGAAATTGTGCAACTGCCTGCTGTTCA
AAGTGAACCAGATTGGCTCCGTGACTGAGTCCCTTCAGGTGTGTCGGCTGGCCCAGGCCAAGGGCTGGGTATCATGGTGT
GTCATGTTCTGGAGAGACTGAAGACATCTTCATCGCCGACCTGGTGGTGGGGTTGTGCACTGGGCAGATCAAGACGGGTG
CACCTTGCACATCCAAGTACTTGGCCAAGTACAGCCAGCTCCTCAGGATTGAAGAGGAGCTGGGCAGCAAGGCCAAGTTT
GCTGGTAGGAACTTCAGAAACCCTCTGGCC

Alignment

ORF - retro_tsyr_52 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.07 %
• Parental protein coverage: 96.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TVEVDLHTAKGRFRAAVPSGASTGIYEALELRDGDKARYLGKGVLKAVEHINKTLGPALLEKKLSVVDQE
          T.EV.L.T.K..FRAAVPSGAS.GIYEALE..D.D.....GKGV..AVEHINKT..PAL..KKL.V..QE
Retrocopy TIEVFLYTLKCLFRAAVPSGASAGIYEALEIQDNDETHSMGKGVSEAVEHINKTIAPALVSKKLNVLEQE

Parental  KVDKFMIELDGTENKSKFGANAILGVSLAVCKAGAAEKGVPLYRHIADLAGNPDLVLPVPAFNVINGGSH
          ..DK.MIE.DG.....KFGA.AILGVSLAVCK.GA..KGVPLYRHIADLAG....VLPV.AFNVIN.GS.
Retrocopy -IDKLMIETDGMH---KFGADAILGVSLAVCKVGAIDKGVPLYRHIADLAGSSEVVLPVSAFNVINSGSY

Parental  AGNKLAMQEFMILPVGASSFKEAMRIG-AEVYHHLKGVIKAKYGKDATNVGDEGGFAPNILENNEALELL
          AG..LA.Q..MI.P..A..F.E..R.G.AEV.H.LK...K.KY..D.TN..DEG.FAP..LE..E.LELL
Retrocopy AGSELAIQQVMIFPGTAANFREVVRVG<AEVSHSLKSTVKEKYSNDGTNLVDEGRFAPSVLEHKEGLELL

Parental  KTAIQAAGYPDKVVIGMDVAASEFYRNGKYDLDFKSPDDPARHITGEKLGELYKSFIKNYPVVSIEDPFD
          KT.I......DK.VI.MDVAAS.F.R.GKYDLDFKSPDDP.R.I....L..LYKSFIK.Y.V.SI.DPF.
Retrocopy KTMIGKVVHTDKAVISMDVAASKFFRSGKYDLDFKSPDDPRRYISSDQLADLYKSFIKDYSVASIKDPFK

Parental  QDDWATWTSFLSGVDIQIVGDDLTVTNPKRIAQAVEKKACKCLLLKVNQIGSVTESIQACKLAQSNGW-G
          .D.W.TW........IQ.V..DLTVTNPK....A...K.C.CLL.KVNQIGSVTES.Q.C.LAQ..GW.G
Retrocopy PDNWVTWQKSTASAGIQVVEGDLTVTNPKHVSKAMGEKLCNCLLFKVNQIGSVTESLQVCRLAQAKGW<G

Parental  VMVSH-RSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQLMRIEEALGDKAVFAGRKFRNPKA
          .MV.H..SGETED.FIADLVVGLCTGQIKTGAPC.S..LAKY.QL.RIEE.LG.KA.FAGR.FRNP.A
Retrocopy IMVCH<CSGETEDIFIADLVVGLCTGQIKTGAPCTSKYLAKYSQLLRIEEELGSKAKFAGRNFRNPLA

Legend:

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

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_52 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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 7 parental genes, and 43 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011679	2 retrocopies	retro_cjac_115, retro_cjac_177,
Dasypus novemcinctus	ENSDNOG00000011654	2 retrocopies	retro_dnov_1712, retro_dnov_75,
Macropus eugenii	ENSMEUG00000007915	25 retrocopies	retro_meug_1019, retro_meug_1341, retro_meug_1483, retro_meug_1540, retro_meug_1566, retro_meug_1605, retro_meug_170, retro_meug_1701, retro_meug_1743, retro_meug_1869, retro_meug_1905, retro_meug_1929, retro_meug_2026, retro_meug_2190, retro_meug_235, retro_meug_269, retro_meug_578, retro_meug_607, retro_meug_637, retro_meug_803, retro_meug_820, retro_meug_906, retro_meug_965, retro_meug_973, retro_meug_976,
Rattus norvegicus	ENSRNOG00000004078	1 retrocopy	retro_rnor_2228,
Tupaia belangeri	ENSTBEG00000002346	5 retrocopies	retro_tbel_1514, retro_tbel_3080, retro_tbel_3130, retro_tbel_4230, retro_tbel_4383,
Tarsius syrichta	ENSTSYG00000002509	1 retrocopy	retro_tsyr_2011,
Tarsius syrichta	ENSTSYG00000007066	7 retrocopies	retro_tsyr_1019, retro_tsyr_1157, retro_tsyr_1626, retro_tsyr_1917, retro_tsyr_2043, retro_tsyr_52 , retro_tsyr_534,