RetrogeneDB ID: retro_ttru_89

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1186:381053..382284(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: S100PBP
• Ensembl ID: ENSTTRG00000014993
• Aliases: None
• Description: S100P binding protein [Source:HGNC Symbol;Acc:25768]

Sequence

>retro_ttru_89
ATGATGTGCTCACTAGTGCCCTCTGAACAATCTTCTGGTACCTTGCCTAAAGACAATGCCCCATTTTGTTGGGATTCCTT
GGATGAGGATGGATTGGATGACTCCTTGCTGGAACTGTCTGATGGAAAAGATGATGGCCATTTCAGTTTCACGGAGGAAG
ATTCAGGAGCTTTTGAAGGATGATGACCTATCAAATGAGCACTTTTCTTGGGGAGGAGGCTTGTCTAACGATGACAGCAG
GAATGTTGAGAAGGGAGGGAAAGGGAGTCAAATTCCACTTGATACTCCCCAAGAGAAAAATTCATTGTACAGCTTGGGAC
CAGAAGCTGAGACCTCTGGCCTCTTCAAACTACCTCAACTAAATACATCAGCTGGTCATGGACCAACTCCTACTAAACCA
TTGAACAGACGCTTTGCACTAGAAAAGAATCTTATAAAAGTTACAGTTGCACCATTTGATCCAACAGTTTGTGATGTTGC
ACTTGATAAGGACAAGACTGATACATCCGAAGTTACTGAAAAACCCTCCTCCCTTGGAGAAGAGATGAGAGAAGATGGTC
TTAGCCTAAGTGAGAGCACAGTTTTCACAGAATCTGAAGGGATCAGCCCCAATAATTCTGCCTATGATGGGCCCCCACTC
CCTTCTTCAAACAGTAAGTTTCAACAAACTGTCTCTGATAAAAATATATCTAACAGTAAGAAGCCTACACCTGTAACCTC
TCAGATATTGAACCATTCAAAGACTCCTTCTAATATGGGGTCATCCTGGAGAAATGGATCACATAAATCAAGTTTTGAAA
TGAGGTTTCCAGTTGTTTCCAGTTCATCAAACAAACATTTTCTTGACAAAGATTCTGGGAAGCTGAAGGTACATGAAAAA
AGACTAGGCAAGGTCATTCCTGTTCTGCAAACCAAAACAAGGACTAATATTCTGACGTTTTCACCATCAGATCTAAAAAA
GCAGAAGCAAAGTTATCTCAGGAATGTCATTGCTCATATAGAAGACCCAGTGAACTCTAACCAAGGTACCTTGGGGGAGC
TGTGTGCCTTGATGGATCACGTTTATCACATACAGAACCCAAAACGGCAGCATCCTTTGGACCTCACCAGGTGAAACTAT
GCCTGGTTCCAACAGAAATCTCTGCAAAAATACAATCTGACTCAGTGGGTTGACGGGAACATGTGAAGCCACCATCGGTT
CCAGCGTCTACCAGATTTCCTGTACAGTCCA

Alignment

ORF - retro_ttru_89 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.23 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPCSLVPSEQSSGTSLLPKDNAPFSWDSLDEDGLDDSLLELSDGEDDGHFSFTEEE-IQELLKDDDLSNE
          M.CSLVPSEQSSGT..LPKDNAPF.WDSLDEDGLDDSLLELSDG.DDGHFSFT.EE.IQELLKDDDLSNE
Retrocopy MMCSLVPSEQSSGT--LPKDNAPFCWDSLDEDGLDDSLLELSDGKDDGHFSFT-EE>IQELLKDDDLSNE

Parental  HFSWGGGLPNHDSRNVEKGGKESQIPLDTPQEKNSLYSLGPEAETTSLFKLPQLNTSVGHGPTPPKPLNR
          HFSWGGGL.N.DSRNVEKGGK.SQIPLDTPQEKNSLYSLGPEAET..LFKLPQLNTS.GHGPTP.KPLNR
Retrocopy HFSWGGGLSNDDSRNVEKGGKGSQIPLDTPQEKNSLYSLGPEAETSGLFKLPQLNTSAGHGPTPTKPLNR

Parental  RFALEKNLIKVTVAPFDPTVCNVVLDKDKTDTSKVTEKPSSLGEEMREDGLSLNESTICTESEGISLSNS
          RFALEKNLIKVTVAPFDPTVC.V.LDKDKTDTS.VTEKPSSLGEEMREDGLSL.EST..TESEGIS..NS
Retrocopy RFALEKNLIKVTVAPFDPTVCDVALDKDKTDTSEVTEKPSSLGEEMREDGLSLSESTVFTESEGISPNNS

Parental  AYDGSPLPFSNSNFQQTVSDKNMSDSKKPTPVFSQILDHSETP-NTGSAWRNGSHKSSFEMRFPVVSSSS
          AYDG.PLP.SNS.FQQTVSDKN.S.SKKPTPV.SQIL.HS.TP.N.GS.WRNGSHKSSFEMRFPVVSSSS
Retrocopy AYDGPPLPSSNSKFQQTVSDKNISNSKKPTPVTSQILNHSKTPSNMGSSWRNGSHKSSFEMRFPVVSSSS

Parental  NKQDVLDKDSGKLKVHEKRLGKVIPVLQTKTRTNIPTFSPSDLEKQKQSYLRNVIAHIEDPVDSNQGTLG
          NK...LDKDSGKLKVHEKRLGKVIPVLQTKTRTNI.TFSPSDL.KQKQSYLRNVIAHIEDPV.SNQGTLG
Retrocopy NKH-FLDKDSGKLKVHEKRLGKVIPVLQTKTRTNILTFSPSDLKKQKQSYLRNVIAHIEDPVNSNQGTLG

Parental  ELCALMGQVHHMQNPKWQHPSDLTRRNYARFRQKSLQRYSLTQWVDQNMRSHHRFQRLPDFPYSP
          ELCALM..V.H.QNPK.QHP.DLTR.NYA.F.QKSLQ.Y.LTQWVD.NM.SHHRFQRLPDF.YSP
Retrocopy ELCALMDHVYHIQNPKRQHPLDLTR*NYAWFQQKSLQKYNLTQWVDGNM*SHHRFQRLPDFLYSP

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_89 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_89 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000000537	1 retrocopy	retro_dnov_1346,
Erinaceus europaeus	ENSEEUG00000006053	1 retrocopy	retro_eeur_439,
Myotis lucifugus	ENSMLUG00000000764	1 retrocopy	retro_mluc_1691,
Monodelphis domestica	ENSMODG00000017396	2 retrocopies	retro_mdom_1633, retro_mdom_62,
Tursiops truncatus	ENSTTRG00000014993	1 retrocopy	retro_ttru_89 ,