RetrogeneDB ID: retro_ttru_1270

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_109204:128164..128402(-)
• 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_1270
TCGATGGCCATGATCTTCAGGTCCAAGTGCTTCCAGCCCTGGCCCCGCCCCGGACAAGGGTGGCTGCCTGCTGGATCACT
TCGGTGAATGTAAAAGCTTTAAAGAGAATTTCATGAAGTGTCTCCAGGGCAATAGTTTTGACAATACTTTGCAGAAATGA
ATCAAAACAATGTATTTAGAATGTAGGATGGAGAGGCAACTGATGTTACAAAAACCCCTGGAAAAACTGGAATTTGGA

Alignment

ORF - retro_ttru_1270 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.25 %
• Parental protein coverage: 86.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  STAMNFGSKSFQ-PRP-PDKGSFPLDHFGECKSFKERFMKCLRDNNFENALCRNESKEYLECRMERQLMV
          S.AM.F.SK.FQ.P.P.PDKG...LDHFGECKSFKE.FMKCL..N.F.N.L.......YLECRMERQLM.
Retrocopy SMAMIFRSKCFQ>PGPAPDKGGCLLDHFGECKSFKENFMKCLQGNSFDNTLQK*IKTMYLECRMERQLML

Parental  PEPLEKLGFG
          ..PLEKL.FG
Retrocopy QKPLEKLEFG

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_1270 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1270 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 ,