RetrogeneDB ID: retro_ttru_673

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_3055:583628..584248(+)
• Located in intron of: ENSTTRG00000015333

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000003870
• Aliases: None
• Description: None

Sequence

>retro_ttru_673
TTTGTTCTGCCTCTTCTTGGGTTGCACGAAGCAGCAAGCTTTTACCAATGTGCTTTGCTGGCAAATGCTCTGACTAGTGC
TCTGAGGCTGCACCAAAGACTACCACACTTCCAGCTAAGCAAAGCATTCCTGGCCCACGCTTCGTCAGAGGACAGCTGCC
ACTACCTCTTCTATTCACTCATTTTTGTCAATTCCCTACCCTGTTACAATGAGTATTTTCCCAGTGCTGTTATTTTATTT
GCTTCATGCTGCCACATACATGAAAAAGGTCCTTGATGCAAAGTGTTCGAACAGCTTACCTCTGCTGAGAGCTCTCTTGG
ATAAATTAAGCGCTAATCAACAGAATATTCTGAAATTCATTGCTTGTAATGAAATATTCTTGATGCCTACTACAGTTTTC
ATGCTTTTTAGTGGTCAATTAAGTTTGCTCCACCCTTTTATATGCTATATTCCTCACTCTTTGATACTCCTCTTGAAGAA
ATCCATATTGTTGGACTTTGTTTAATGAACCGAGGATTGTTGTTGAACATCTGATAATGAAACCTGCTTGCTCACTGTTT
GTGAGAAGACTTTGTCTCCAGAGCATTGCCTTTATAAGCAGACTGGCACCAACAGTTGCA

Alignment

ORF - retro_ttru_673 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.1 %
• Parental protein coverage: 89.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FVLPLLGLHEAASFYQRALLANALTSALRLHQRLPHFQLSRAFLAQALLEDSCHYLLYSLIFVNS-YPVT
          FVLPLLGLHEAASFYQ.ALLANALTSALRLHQRLPHFQLS.AFLA.A..EDSCHYL.YSLIFVNS.YPVT
Retrocopy FVLPLLGLHEAASFYQCALLANALTSALRLHQRLPHFQLSKAFLAHASSEDSCHYLFYSLIFVNS>YPVT

Parental  MSIFPVLLFSLLHAATYTKKVLDAKGSNSLPLLRSLLDKLSTNQQNILKFIACNEIFLMPATVFMLFSGQ
          MSIFPVLLF.LLHAATY.KKVLDAK.SNSLPLLR.LLDKLS.NQQNILKFIACNEIFLMP.TVFMLFSGQ
Retrocopy MSIFPVLLFYLLHAATYMKKVLDAKCSNSLPLLRALLDKLSANQQNILKFIACNEIFLMPTTVFMLFSGQ

Parental  GSLLQ-PF-IYYRFLTLRYSSRRNPYCRTLFNELRIVVEHLIMKPACPLFVRRLCLQSIAFISRLAPTVA
          .SLL..PF..Y..FLTL.YSS.RNPYC.TLFNE.RIVVEHLIMKPAC.LFVRRLCLQSIAFISRLAPTVA
Retrocopy LSLLH<PF<LYAIFLTL*YSS*RNPYCWTLFNEPRIVVEHLIMKPACSLFVRRLCLQSIAFISRLAPTVA

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_673 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_673 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000043958	1 retrocopy	retro_btau_390,
Choloepus hoffmanni	ENSCHOG00000007675	1 retrocopy	retro_chof_1766,
Tursiops truncatus	ENSTTRG00000003870	1 retrocopy	retro_ttru_673 ,