RetrogeneDB ID: retro_ttru_288

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1775:245985..248549(+)
• Located in intron of: ENSTTRG00000000235

Retrocopy information

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

Parental gene information

• Parental gene symbol: SOS2
• Ensembl ID: ENSTTRG00000004164
• Aliases: None
• Description: son of sevenless homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:11188]

Sequence

>retro_ttru_288
GCAGATAAGGTTTTGATGGACATGTTTGATCAGGATGACATAGGCTTGGTTTCTCTTTGTGAAGATGAACCTAGTTCTTC
AGGTGAATTAAACTACTATGACCTTGTCAGAACTGAAATTGCAGAAGAAAGACAGTATCTACGGGAACTAAATATGATCA
TAAAAGTGTTTTGAGAAGCTTTTATTTCTGACAGAAAGCTGTCTAAACTTTCTGATATTGAAAAGATTTTCAGTAACATT
TTAGCTATGCATGAACTGACTGTGAAACTTCTGGGTTTAATTGAAGACACAGTTGAAATGACTGATGAAAGCAGCCCTCA
TCCCTTAGCTGGAAGCTGTTTTGAAGATTTGGCAGAGGAACGAGCATTTGATCCTTATGAAACATTATCACAGGATATTC
TTTCACCAAAATTTAATGAACATTTCAGTAAGTTGATGGCCAGACCTGCAGTGGCTCTGCACTTTCAGTCCATTGCTGAT
GGTTTTAAAGAGGCAGTTCGTTATGTCCTTCCACGCCTTATGCTGGTGCCAGTATATCATTGTTGGCACTATTTTGAATT
ATTAAAGCAATTGAAAGCATGTAGTGAAGAGCATGAAGACAGAGAATGTTTGAACCAAGCTGTTACTGCTCTCATGAATC
TCCAAGGTAGTGTAGACCGAATTTACAAGCAGTATTCACCTAGACGCTGACCTGGGGATCCTGTTTGCCCTTTTTATAAT
CGTCAATTAAGAAGCAAGCACCTGGCTATTAAAAAAATGAATGAAATTCAGAAAAACATAGATGGATGGGAAGGCAAAGA
TATTGGACAGTGTTGTAATGAATTTATTATGGAAGGCCCATTGACAAGAATTGGTGCTAAACATGAACGGCATATTTTTC
TCTTTGATGGCTTAATGATTAGCCGCAAACTCAGTCACAGCCAGTCACACCTTCCAGGATACAGTAGTAGAGAATACAGA
TTAAAAGAAAAATTTGTCATGAGGAAAATACAAATATGTGATAAAGAAGATACTTGTGAGTGCAAACATGCTTTTGAATT
AGTATCCAAAGATGAAAACAGCATAATATTTGCTGCTAAGTTTGCTGAAGAGAAAAATAACTGGATGGCAGCACTTATTT
CTCTTCATTATCATAGTACTCTACATCGAATGCTAGATTCAGTATTATTGAAGGAAGAAAATGAGCAACCACTTAGATTA
CCGAGTCCTGAAGTGTATCGTTTTGTGGTAAAAGACTCTGAGGAAAACATTGTTTTTGAAGACAACTTGCAGAGTAGAAG
TGGAATCCCCATTATTAAAGGAGGAACTGTGGTGAAATTAATTGAAAGGTTAACACATCACATGTATGCAGATCCCAGTT
TTGTTCGCACTTTTCTTACTACGTATCGTTCATTTTGTAAACCACAGGAATTGCTAAGCTTACTGATTGAACGATTTGAA
ATTCCAGAGCCAGAACCTAGTGAAGCAGATAAATTGGCAGTAGAGAAAGGCGAGCAGCCAATCAGTGCAGACCTTAAAAG
GTTTCGCAAGGAATACGTCCAGCCAGTACAACTTAGGATCTTAAATGTGTTTCGGTACAGGGTTGAACACCATTTTTATG
ACTTTGAAAGAGACTTGGAGTTGCTTGAAAGACTAGAATCCTTCATTTCAAGTGTAAGAGGGAAAGCTATGAAGAAATGG
GTAGAGTCAGTTGCTAAGATCATCAAGAGGAAGAAACAAGCTCAGGCAAATGGAATAAGCCATAATATTAGCTTTGGAAG
TCCACCTCCACCAATTGAATGGCATATCAGCAGACCAGGACAGTTTGAAACATTTGATCTCATGACACTTCATCCAATAG
AAATTGCACATCAGCTGATACTTCTGGAATCTGATCTCTACAGGAAAGTTCAACCTTCTGAACTTGTAGGGAGTGTATGG
ACCAAAGAAGATAAAGAAATAAATTCTCCAAATTTATTAAAAATGATTCGCCACACCACAAATCTCACTCTCTGGTTTGA
AAAGTGCATTGTGGAAGCAGAAAATTTTGAGGAACGGGTGGCAGTACTAAGTAGAATTATAGAAATTCTGCAAGTTTTTC
AAGATTTGAATAATTTCAGTGGTGTAGTAGAGATGTCAGTGCAATAAATTCAGTATCAGTCTGTAGATAAGATCATACCT
TTGAGGAAAGAAAAAGGAAAATTTTGGATGAAGCTGTGGAATTAAGTCAAGATTATTTTAAAAAATATCTAGTGAAACTT
AAGTCAATCAGTCCACCTTGTGTGTCTTTTTTTGGAATATATTTAACAAATATTCTGAAGACTGAAGAAGGGAATAATGA
TTTTTTAAAAAAGAAAGGGAAAGATTTAATCAATTTCAGTAAGAGGAAAAAAGTAGCTGAAATTACTGGAGAAATTCAGC
AATATCAGAATCAGCCTTACTGTTTACGGGTAGAACCAGAAATGAGAAGGTTCTTTGAAAACCTTAACCCCATGGGAAAT
GCTTCTGAAAACGAGTTTACAGATTATTTGTTCAACAAGTCACTAGAAATTGAACCCCGAAACTGCAAACAGCCACCTCG
ATTT

Alignment

ORF - retro_ttru_288 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.53 %
• Parental protein coverage: 65.85 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ADKVLMDMFDQDDIGLVSLCEDEPSSSGELNYYDLVRTEIAEERQYLRELNMIIKVFREAFLSDRDLFKP
          ADKVLMDMFDQDDIGLVSLCEDEPSSSGELNYYDLVRTEIAEERQYLRELNMIIKVF.EAF.SDR.L.K.
Retrocopy ADKVLMDMFDQDDIGLVSLCEDEPSSSGELNYYDLVRTEIAEERQYLRELNMIIKVF*EAFISDRKLSKL

Parental  SDIEKIFSNILDIHELTVKLLGLIEDTVEMTDESSPHPLAGSCFEDLAEEQAFDPYETLSQDILSPKFNE
          SDIEKIFSNIL..HELTVKLLGLIEDTVEMTDESSPHPLAGSCFEDLAEE.AFDPYETLSQDILSPKFNE
Retrocopy SDIEKIFSNILAMHELTVKLLGLIEDTVEMTDESSPHPLAGSCFEDLAEERAFDPYETLSQDILSPKFNE

Parental  HFSKLMARPAVALHFQSIADGFKEAVRYVLPRLMLVPVYHCWHYFELLKQLKACSEEHENRECLNQAITA
          HFSKLMARPAVALHFQSIADGFKEAVRYVLPRLMLVPVYHCWHYFELLKQLKACSEEHE.RECLNQA.TA
Retrocopy HFSKLMARPAVALHFQSIADGFKEAVRYVLPRLMLVPVYHCWHYFELLKQLKACSEEHEDRECLNQAVTA

Parental  LMNLQGSMDRIYKQYSPRRRPGDPVCPFYNRQLRSKHLAIKKMNEIQKNIDGWEGKDIGQCCNEFIMEGP
          LMNLQGS.DRIYKQYSPRR.PGDPVCPFYNRQLRSKHLAIKKMNEIQKNIDGWEGKDIGQCCNEFIMEGP
Retrocopy LMNLQGSVDRIYKQYSPRR*PGDPVCPFYNRQLRSKHLAIKKMNEIQKNIDGWEGKDIGQCCNEFIMEGP

Parental  LTRIGAKHERHIFLFDGLMISCKPNHSQSRLPGYSSAEYRLKEKFVMRKIQICDKEDTCECKHAFELVSK
          LTRIGAKHERHIFLFDGLMIS.K..HSQS.LPGYSS.EYRLKEKFVMRKIQICDKEDTCECKHAFELVSK
Retrocopy LTRIGAKHERHIFLFDGLMISRKLSHSQSHLPGYSSREYRLKEKFVMRKIQICDKEDTCECKHAFELVSK

Parental  DENSIIFAAKSAEEKNNWMAALISLHYRSTLDRMLDSVLLKEENEQPLRLPSPEVYRFVVKDSEENIVFE
          DENSIIFAAK.AEEKNNWMAALISLHY.STL.RMLDSVLLKEENEQPLRLPSPEVYRFVVKDSEENIVFE
Retrocopy DENSIIFAAKFAEEKNNWMAALISLHYHSTLHRMLDSVLLKEENEQPLRLPSPEVYRFVVKDSEENIVFE

Parental  DNLQSRSGIPIIKGGTVVKLIERLTYHMYADPNFVRTFLTTYRSFCKPQELLSLLIERFEIPEPEPTEAD
          DNLQSRSGIPIIKGGTVVKLIERLT.HMYADP.FVRTFLTTYRSFCKPQELLSLLIERFEIPEPEP.EAD
Retrocopy DNLQSRSGIPIIKGGTVVKLIERLTHHMYADPSFVRTFLTTYRSFCKPQELLSLLIERFEIPEPEPSEAD

Parental  KLAVEKGEQPISADLKRFRKEYVQPVQLRILNVFRHWVEHHFYDFERDLELLERLESFISSVRGKAMKKW
          KLAVEKGEQPISADLKRFRKEYVQPVQLRILNVFR..VEHHFYDFERDLELLERLESFISSVRGKAMKKW
Retrocopy KLAVEKGEQPISADLKRFRKEYVQPVQLRILNVFRYRVEHHFYDFERDLELLERLESFISSVRGKAMKKW

Parental  VESIAKIIKRKKQAQANGISHNITFESPPPPIEWHISRPGQFETFDLMTLHPIEIARQLTLLESDLYRKV
          VES.AKIIKRKKQAQANGISHNI.F.SPPPPIEWHISRPGQFETFDLMTLHPIEIA.QL.LLESDLYRKV
Retrocopy VESVAKIIKRKKQAQANGISHNISFGSPPPPIEWHISRPGQFETFDLMTLHPIEIAHQLILLESDLYRKV

Parental  QPSELVGSVWTKEDKEINSPNLLKMIRHTTNLTLWFEKCIVEAENFEERVAVLSRIIEILQVFQDLNNFN
          QPSELVGSVWTKEDKEINSPNLLKMIRHTTNLTLWFEKCIVEAENFEERVAVLSRIIEILQVFQDLNNF.
Retrocopy QPSELVGSVWTKEDKEINSPNLLKMIRHTTNLTLWFEKCIVEAENFEERVAVLSRIIEILQVFQDLNNFS

Parental  GVLEI-VSAVNSVSVYRLDHTFEALQERKRKILDEAVELSQDHFKKYLLKLKSINPPCVPFFGIYLTNIL
          GV.E..VSA.NSVSV.R.DHTFE...ERKRKILDEAVELSQD.FKKYL.KLKSI.PPCV.FFGIYLTNIL
Retrocopy GVVEM<VSAINSVSVCR*DHTFE---ERKRKILDEAVELSQDYFKKYLVKLKSISPPCVSFFGIYLTNIL

Parental  KTEEGNNDFLKKKGKDLINFSKRRKVAEITGEIQQYQNQPYCLRIEPEMRRFFENLNPMGNASEKEFTDY
          KTEEGNNDFLKKKGKDLINFSKR.KVAEITGEIQQYQNQPYCLR.EPEMRRFFENLNPMGNASE.EFTDY
Retrocopy KTEEGNNDFLKKKGKDLINFSKRKKVAEITGEIQQYQNQPYCLRVEPEMRRFFENLNPMGNASENEFTDY

Parental  LFNKSLEIEPRNCKQPPRF
          LFNKSLEIEPRNCKQPPRF
Retrocopy LFNKSLEIEPRNCKQPPRF

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_288 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_288 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000004164	1 retrocopy	retro_ttru_288 ,
Tursiops truncatus	ENSTTRG00000004307	1 retrocopy	retro_ttru_1663,