RetrogeneDB ID: retro_ttru_1323

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_110468:126318..126597(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LY6E
• Ensembl ID: ENSTTRG00000001986
• Aliases: None
• Description: lymphocyte antigen 6 complex, locus E [Source:HGNC Symbol;Acc:6727]

Sequence

>retro_ttru_1323
ATGAAGGTCTTCCTGCCGGTGCTGCTGGCTGCCCTCCTGGGTGTGGAGCGAGCCCACTCCCTGGTGTGCTTCTGTTGCGT
GAATAAGAACAGCAACTGGTACTGCCTGAAGCCCACCGTCTGCTCCGATACAAACAACTACTGTGTGAGCATCTCTGCAT
CCGCTGTTATCGGGAACGTGGTGGACTTTGGCTACACCCTGAACAAGGGCTACTCCCCATTCTGCCCCATCCCGAGCGTC
AATCTCCGTGTGGCGTCCGTGGACACCCGCTGCTGCCAG

Alignment

ORF - retro_ttru_1323 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.02 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKVFLPVLLAALLGVEQVHSLVCFSCVNENSNWYCLKPTVCSDTDNYCVTISASAGIGNVVDFGYTLNKG
          MKVFLPVLLAALLGVE..HSLVCF.CVN.NSNWYCLKPTVCSDT.NYCV.ISASA.IGNVVDFGYTLNKG
Retrocopy MKVFLPVLLAALLGVERAHSLVCFCCVNKNSNWYCLKPTVCSDTNNYCVSISASAVIGNVVDFGYTLNKG

Parental  CSPICPIQSVNLGVASVGTHCCQ
          .SP.CPI.SVNL.VASV.T.CCQ
Retrocopy YSPFCPIPSVNLRVASVDTRCCQ

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_1323 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1323 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000021460	2 retrocopies	retro_cjac_2250, retro_cjac_808,
Mus musculus	ENSMUSG00000022587	1 retrocopy	retro_mmus_724,
Pongo abelii	ENSPPYG00000018927	1 retrocopy	retro_pabe_2122,
Tursiops truncatus	ENSTTRG00000001986	2 retrocopies	retro_ttru_1323 , retro_ttru_742,