RetrogeneDB ID: retro_ttru_1837

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_93840:77200..78234(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SERPINB6
• Ensembl ID: ENSTTRG00000003879
• Aliases: None
• Description: serpin peptidase inhibitor, clade B (ovalbumin), member 6 [Source:HGNC Symbol;Acc:8950]

Sequence

>retro_ttru_1837
AGAAACATGTTTTTCTACCCCATGAGCATCTTCTCTGCCCTGGTCGTAGTTTTCATGGGAGCAAGTGGAAAAACCACAGC
CCAGGTGTCCCAGGCATTTCTTTAAGTAAAAGCAGAGGCAGAGGTGAAGATGCTCACCAGGGTTTCAAGTTACTCCTCAC
CAAGGTTAACAGAACTGGTACACACTACTTGCTTAGAGCAGCCAACAGTCTCCTTGGAGAAAAGGCCTGTGATTTCCTCT
CATCTTTCAGAGTTTCCTGTTGCAAATTCTACCAAGCAGAGATGGAAGAGTCGACTTGAGCAACATTTCAGAGGAGTCCA
GAAACCACATAAACACCTGGGTAACCAAAAGTTAAAAGGTAAAATTATAGAGTTGCTGTCTCCAAATTCAGTTAATTCAG
TGACTAATCTGATTCCTGTGAATGCCATCTAATTCAAAGAAAACTGCGCTCATCAACTTAACAAAGTGCAGACCAAAGAA
AGACAATGGAAACTCAGCAAGAATGAAGACAAGCCTGTGCAAATGATGTTTAAGGAATATACCTTTAAAAAGACCTATAT
AGGAGAACTATTCACCAAAATTTTGGTGCTTCCCCATATTGGCAAGTAGCTGAATATGTTCATCATGCTTCCAGATGAAA
AGACCAGTTGAAAAAGGGTGGAAAAATAACTTACTTATGAGAAAATCATAGAATGGACAAAACTAGACATGACGAATGAA
GAAGAGGTGGAAGGTTTCCTCCTGAGATTTAAGCTGGTGGAGAAATAGGACAGGCAGGATGCTCTTTGCAGTATGGGAAT
GATGGATGCCTTGGAGCAGACCAGGGCAACTCTTCTGGAGTGTCATCCAAGAGAGACCTCTTTCTGCCCAAGGTCCTGCA
CAGTTCCTTCGTGAATGTCAATGAAGAAGGCATGGAGATAATGGCCACCACTGCTGCCATCATGATGATGCCACCTGTAA
GAATGATCCCCAGGTTCTGTGAGAACCACCCCTTTCTTTTGTTTATCCAGCACAACAAAACCAATTTTATTCTT

Alignment

ORF - retro_ttru_1837 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.71 %
• Parental protein coverage: 90.81 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  QNVFISPISISSALAMVLMGAQGDTAAQMSQA-LSLSRSSGGGGDVHQDFQNLLTEVNRTGTQYLLRTAN
          .N.F..P.SI.SAL..V.MGA.G.T.AQ.SQA..SLS.S.G.G.D.HQ.F..LLT.VNRTGT.YLLR.AN
Retrocopy RNMFFYPMSIFSALVVVFMGASGKTTAQVSQA<ISLSKSRGRGEDAHQGFKLLLTKVNRTGTHYLLRAAN

Parental  RLFGEKTYDFLPSFKDACRKFYQAEMEE-LDFISAAEESRKHINTWVA-QRTEGNIIDLLSPGSVDSMTS
          .L.GEK..DFL.SF...C.KFYQAEMEE..D.....EESR.HINTWV..Q...G.II.LLSP.SV.S.T.
Retrocopy SLLGEKACDFLSSFRVSCCKFYQAEMEE<VDLSNISEESRNHINTWVT<QKLKGKIIELLSPNSVNSVTN

Parental  LVLVNAIYFKGNWENQFNQQLTKERPFKVSKNVEKPVQMMFKKSTFKMTYIEEISTKILVLPYVGSELNM
          L..VNAI.FK.N...Q.N...TKER..K.SKN..KPVQMMFK..TFK.TYI.E..TKILVLP..G..LNM
Retrocopy LIPVNAI*FKENCAHQLNKVQTKERQWKLSKNEDKPVQMMFKEYTFKKTYIGELFTKILVLPHIGK*LNM

Parental  IIMLPDENTDLKTVEKELTYEKFVEWTRPDLLDEEEVEVSLPRFKLRESYDLEGVLRALGVTDAFEGARA
          .IMLPDE.T..K.VEK.LTYEK..EWT..D...EEEVE..L.RFKL.E..D....L...G..DA.E..RA
Retrocopy FIMLPDEKTS*KRVEK*LTYEKIIEWTKLDMTNEEEVEGFLLRFKLVEK*DRQDALCSMGMMDALEQTRA

Parental  -DFSAMSAQSNLCLSRVVHKAFVEVDEQGTEAAAATAAVLMLRCARITPRFCADHPFLFFIQHSKTRGLL
          ...S..S....L.L..V.H..FV.V.E.G.E..A.TAA..M....R..PRFC..HPFL.FIQH.KT...L
Retrocopy <NSSGVSSKRDLFLPKVLHSSFVNVNEEGMEIMATTAAIMMMPPVRMIPRFCENHPFLLFIQHNKTNFIL

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_1837 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1837 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017483	1 retrocopy	retro_btau_827,
Microcebus murinus	ENSMICG00000001981	1 retrocopy	retro_mmur_403,
Myotis lucifugus	ENSMLUG00000008803	1 retrocopy	retro_mluc_1610,
Monodelphis domestica	ENSMODG00000005468	2 retrocopies	retro_mdom_510, retro_mdom_602,
Mustela putorius furo	ENSMPUG00000000448	1 retrocopy	retro_mputfur_1037,
Mus musculus	ENSMUSG00000060147	2 retrocopies	retro_mmus_3191, retro_mmus_3192,
Pteropus vampyrus	ENSPVAG00000010001	1 retrocopy	retro_pvam_1243,
Tursiops truncatus	ENSTTRG00000003879	2 retrocopies	retro_ttru_1224, retro_ttru_1837 ,