RetrogeneDB ID: retro_ttru_1224

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_107596:69289..70312(-)
• 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_1224
GAACACCTGGGTGAAGACAACTCGAAAAATGTGTTTTTCTCACCCATAAGCATCCCCTCTGCCCTGGCCATGGTCTTCAT
GGGGGCAAAGGGAAACACTGTGGCCCAGATGTCCCAGGCACTTTCTCTAAGCAAAAGCAGCAGTGGAGGTGGAGACGTCC
ACCAGGGTTTCCAGAACCTTCTCACCGAAGTTAACAGGACCAGCATATAGTACTTGCTCCGAACCGTCAACAGGCTCTTT
GGAGAGAAGACTTATGGTTTCCTCCCATCTTTCAAAGATTCCTGCCGCAAATTCTACCAAGCAGAGACGGAAGAGCTGGA
CTTTATCAGTGCTGCGGAGGAATCCAGGAAACACATAAACACCTGGGTAGCCCAAAGGACAGAAGGAAAAATTACAGACC
TGCTGTCTCCAAATACAGTGGACCCCATGACCTGTCTGGTTCTCGTGAACGCCATCTACTTCAAAGGAAACTGGAAGAAT
CAGTTTAACAAACAGCACACCAAGGAAAGTCTGTTCAAAGTCAGCAAGAATGTGGAGAAGGCTGTGCAAATGATCTTCAA
GAAATCCACCTTTAAAATGAACTACATTGGAGAGATATTCACGAAGATTCTGGTGCTTCCCTACATCGGCAGGGAGCTCA
ATATGATCATCATGCTTCCCAATGAAAACACCGATTTGAAAACAGTGGAAAAGGACCTTGCTTATGAGAAATTCATCGAG
TGGACGAGGCCGGACCTGATAGAGGAGGAGGTGGAGGTGTCCCTGCCCAGGTTTAAGCTGGGGAAGAGCTACGGCATGGA
GGGTGTCCTCCGCACCCTGGGTGTGACCGACGCCTTCGAGGACACCAGGGCGGATTTCTCAGCCATGTCGGCCCAGAGGG
ACCTGCGCCTGTCCCAGGTCATCCACAAGACCTTTGTGGAGGTCGACGAGGAGGGCACAGAGGCGGCCACGGCCTCCGCC
GCAGTCCTGATGTTGCGCTGCACCAGAATCACCCCCAGGTTCCGAGCCGAACACCCTTTCCTC

Alignment

ORF - retro_ttru_1224 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.87 %
• Parental protein coverage: 89.76 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KHLGEDSSQNVFISPISISSALAMVLMGAQGDTAAQMSQALSLSRSSGGGGDVHQDFQNLLTEVNRTGTQ
          .HLGED.S.NVF.SPISI.SALAMV.MGA.G.T.AQMSQALSLS.SS.GGGDVHQ.FQNLLTEVNRT...
Retrocopy EHLGEDNSKNVFFSPISIPSALAMVFMGAKGNTVAQMSQALSLSKSSSGGGDVHQGFQNLLTEVNRTSI*

Parental  YLLRTANRLFGEKTYDFLPSFKDACRKFYQAEMEELDFISAAEESRKHINTWVAQRTEGNIIDLLSPGSV
          YLLRT.NRLFGEKTY.FLPSFKD.CRKFYQAE.EELDFISAAEESRKHINTWVAQRTEG.I.DLLSP..V
Retrocopy YLLRTVNRLFGEKTYGFLPSFKDSCRKFYQAETEELDFISAAEESRKHINTWVAQRTEGKITDLLSPNTV

Parental  DSMTSLVLVNAIYFKGNWENQFNQQLTKERPFKVSKNVEKPVQMMFKKSTFKMTYIEEISTKILVLPYVG
          D.MT.LVLVNAIYFKGNW.NQFN.Q.TKE..FKVSKNVEK.VQM.FKKSTFKM.YI.EI.TKILVLPY.G
Retrocopy DPMTCLVLVNAIYFKGNWKNQFNKQHTKESLFKVSKNVEKAVQMIFKKSTFKMNYIGEIFTKILVLPYIG

Parental  SELNMIIMLPDENTDLKTVEKELTYEKFVEWTRPDLLDEEEVEVSLPRFKLRESYDLEGVLRALGVTDAF
          .ELNMIIMLP.ENTDLKTVEK.L.YEKF.EWTRPDL..EEEVEVSLPRFKL..SY..EGVLR.LGVTDAF
Retrocopy RELNMIIMLPNENTDLKTVEKDLAYEKFIEWTRPDLI-EEEVEVSLPRFKLGKSYGMEGVLRTLGVTDAF

Parental  EGARADFSAMSAQSNLCLSRVVHKAFVEVDEQGTEAAAATAAVLMLRCARITPRFCADHPFL
          E..RADFSAMSAQ..L.LS.V.HK.FVEVDE.GTEAA.A.AAVLMLRC.RITPRF.A.HPFL
Retrocopy EDTRADFSAMSAQRDLRLSQVIHKTFVEVDEEGTEAATASAAVLMLRCTRITPRFRAEHPFL

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_1224 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1224 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,