RetrogeneDB ID: retro_ttru_1140

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_105443:217962..218209(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COX19
• Ensembl ID: ENSTTRG00000011489
• Aliases: None
• Description: cytochrome c oxidase assembly homolog 19 (S. cerevisiae) [Source:HGNC Symbol;Acc:28074]

Sequence

>retro_ttru_1140
TTTGAGATCAAGAAATTCCAGCTGCAGCCCTTGGACAAGGGTAGTTTCCTGTGGAATAACTTGGGAGAATGTAAAGTCCT
TAAAGAAAATTTTACAAAATGCTTGGTTAAGCAGAATTTTGAAGTGTTTGTACAGAAATATATTAAAAGGATATTTGGCA
TGGCGAATAGAGAAGTGGTTAATGGCAGAAGAACCATTAGAAAAACTGAGATTTAGAGATCTAATAGATGAAAAATTAGA
AACAGAA

Alignment

ORF - retro_ttru_1140 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.76 %
• Parental protein coverage: 92.22 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FGSKSFQPRPPDKGSFPLDHFGECKSFKE-RFMKCLRDNNFENA-LCRNESKEYLECRMERQLMVPEPLE
          F..K.FQ..P.DKGSF.....GECK..KE..F.K.L....F....L.RN..K.YL..R.E..LM..EPLE
Retrocopy FEIKKFQLQPLDKGSFLWNNLGECKVLKE<KFYKMLG*AEF*SV<LYRNILKGYLAWRIEKWLMAEEPLE

Parental  KLGFGDLIDGKSETK
          KL.F.DLID.K.ET.
Retrocopy KLRFRDLIDEKLETE

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_1140 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1140 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015253	1 retrocopy	retro_btau_671,
Homo sapiens	ENSG00000240230	1 retrocopy	retro_hsap_3300,
Gorilla gorilla	ENSGGOG00000034907	1 retrocopy	retro_ggor_1312,
Macaca mulatta	ENSMMUG00000007202	1 retrocopy	retro_mmul_2067,
Pan troglodytes	ENSPTRG00000041621	1 retrocopy	retro_ptro_2168,
Pteropus vampyrus	ENSPVAG00000002192	1 retrocopy	retro_pvam_409,
Tursiops truncatus	ENSTTRG00000011489	2 retrocopies	retro_ttru_1140 , retro_ttru_1270,