RetrogeneDB ID: retro_ttru_1516

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_115161:40754..41018(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LYRM2
• Ensembl ID: ENSTTRG00000007420
• Aliases: None
• Description: LYR motif containing 2 [Source:HGNC Symbol;Acc:25229]

Sequence

>retro_ttru_1516
ATCGCCACTTCCCGCTTACCCACAGTAAAAGTAACACTAAAGCAGTTCATGAGAAAGCAACAAGTTCTCCTCCTCCACAG
AAGGATTTTGCAGACAATTTGGCAAGTTCCAAATGATTGTGATCACAAATACCTGAAGGACTGGGCAAGGGAAGGATTCA
AAAGAAACTAAAGTGCCACTGAAGAGGATACAATCCAGATGATGATTACTCAAGGCAATACGCAGCTCAAAGAGTTAGAA
AAAATACTTGCTTTAGCCAGATCT

Alignment

ORF - retro_ttru_1516 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.55 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAASRLPPATLTLKQFVRRQQVLLLYRRILQAIRQVPNDSDRKYLKDWAREEFKRNKSATEEDTIRMMIT
          .A.SRLP....TLKQF.R.QQVLLL.RRILQ.I.QVPND.D.KYLKDWARE.FKRN.SATEEDTI.MMIT
Retrocopy IATSRLPTVKVTLKQFMRKQQVLLLHRRILQTIWQVPNDCDHKYLKDWAREGFKRN*SATEEDTIQMMIT

Parental  QGNMQLKELEKTLALARS
          QGN.QLKELEK.LALARS
Retrocopy QGNTQLKELEKILALARS

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_1516 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1516 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000009916	1 retrocopy	retro_meug_2134,
Microcebus murinus	ENSMICG00000012230	2 retrocopies	retro_mmur_631, retro_mmur_650,
Mus musculus	ENSMUSG00000045854	2 retrocopies	retro_mmus_474, retro_mmus_790,
Otolemur garnettii	ENSOGAG00000034900	1 retrocopy	retro_ogar_508,
Sus scrofa	ENSSSCG00000004324	1 retrocopy	retro_sscr_686,
Ictidomys tridecemlineatus	ENSSTOG00000016198	1 retrocopy	retro_itri_1279,
Tursiops truncatus	ENSTTRG00000007420	1 retrocopy	retro_ttru_1516 ,