RetrogeneDB ID: retro_ttru_1513

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_114961:64733..64982(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COX16
• Ensembl ID: ENSTTRG00000014791
• Aliases: None
• Description: COX16 cytochrome c oxidase assembly homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:20213]

Sequence

>retro_ttru_1513
TTGCTGATTGTTGGAGGTTCTTTTGGTCTTCATGAGTTTTCACAAATCTGTTATGATGCTGTGAAGATTAAAATTGATCC
TGAGTTAGAAAAAAAGCTGAAAATGAATAAAGTGTCATTGGGATTAGAGTATGAGGAAATAAAGGACTTCACTTTTGATG
AGTGGAAGAACATTCAAGGACCCAGGCCTTGGGAAGATCCTGACCTTCTCCAAGGAAGAAATCCAGATATCCTTAAGACT
AAGACAACT

Alignment

ORF - retro_ttru_1513 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.54 %
• Parental protein coverage: 78.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLIVGGSFGLREFSQIRYDAVKIKIDPELEKKLKMNKVSLESEYEKIKDSTFDDWKNIRGPRPWEDPDLL
          LLIVGGSFGL.EFSQI.YDAVKIKIDPELEKKLKMNKVSL..EYE.IKD.TFD.WKNI.GPRPWEDPDLL
Retrocopy LLIVGGSFGLHEFSQICYDAVKIKIDPELEKKLKMNKVSLGLEYEEIKDFTFDEWKNIQGPRPWEDPDLL

Parental  QGQNPEIRNTKTT
          QG.NP.I..TKTT
Retrocopy QGRNPDILKTKTT

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_1513 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1513 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000133983	1 retrocopy	retro_hsap_2038,
Macaca mulatta	ENSMMUG00000011089	2 retrocopies	retro_mmul_1368, retro_mmul_1391,
Nomascus leucogenys	ENSNLEG00000001776	1 retrocopy	retro_nleu_2908,
Otolemur garnettii	ENSOGAG00000028663	1 retrocopy	retro_ogar_3045,
Pongo abelii	ENSPPYG00000005951	2 retrocopies	retro_pabe_1663, retro_pabe_1664,
Pan troglodytes	ENSPTRG00000006494	1 retrocopy	retro_ptro_1355,
Rattus norvegicus	ENSRNOG00000047115	1 retrocopy	retro_rnor_1546,
Tarsius syrichta	ENSTSYG00000013313	1 retrocopy	retro_tsyr_1700,
Tursiops truncatus	ENSTTRG00000014791	1 retrocopy	retro_ttru_1513 ,