RetrogeneDB ID: retro_ttru_1512

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_114948:86788..87236(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DUSP11
• Ensembl ID: ENSTTRG00000015444
• Aliases: None
• Description: dual specificity phosphatase 11 (RNA/RNP complex 1-interacting) [Source:HGNC Symbol;Acc:3066]

Sequence

>retro_ttru_1512
GGCTTTTCCGGACGTTCGTCGGCCAAGAGGAAGGGCGGAAAGCACATCCCAGAAAGGTGGAAAGACTATCACCCAGTTGG
ACAGTGGATGCTTGGGACATGTTTCATTGTTTTCAAAGTTCCTTTAAAAAAGAGTTTTGAAAAGAATCTTGCTTCAGAAG
AATGTTTTTCCCCCTTGGATCTTTTTTAACAAAATCCAAGAACAGAATGAAGATCTTGGGCTGATTATTGACTTAACATA
CACTTGCCGCTATTATAAGTCAGAGGACTTACCAGAAACTACTCTTTATTTAAAAATTGATGCAATTGGGCATCAGGTGT
CAGAGGACGACACTATTTTTAAATTCCAATGTGCTGTTAATGGGTTTTTGAAAGAAAATAAAGATAATGACAGACTTACT
GGTGTCCACTGTACCCATGGCTTAAACAGGACTCACTACCTCATCTGC

Alignment

ORF - retro_ttru_1512 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78. %
• Parental protein coverage: 82.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GFSGRSSARRKGGKHMPERWEDYLPVEQPMSGTRFLAFKVPLKKSFEKNLASEELFSLLDLF-NKL-EQN
          GFSGRSSA.RKGGKH.PERW.DY.PV.Q.M.GT.F..FKVPLKKSFEKNLASEE.FS.LDLF.NK..EQN
Retrocopy GFSGRSSAKRKGGKHIPERWKDYHPVGQWMLGTCFIVFKVPLKKSFEKNLASEECFSPLDLF>NKIQEQN

Parental  EELGLIIDLTYNRRFYKPEDLQEIIPYLKICTIGHLVPDDHTIFKFQCAVKGFLKENKDNDRLIGVHCTH
          E.LGLIIDLTY..R.YK.EDL.E...YLKI..IGH.V..D.TIFKFQCAV.GFLKENKDNDRL.GVHCTH
Retrocopy EDLGLIIDLTYTCRYYKSEDLPETTLYLKIDAIGHQVSEDDTIFKFQCAVNGFLKENKDNDRLTGVHCTH

Parental  GLNRTGYLIC
          GLNRT.YLIC
Retrocopy GLNRTHYLIC

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_1512 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1512 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 5 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012041	2 retrocopies	retro_chof_2647, retro_chof_932,
Echinops telfairi	ENSETEG00000005304	1 retrocopy	retro_etel_487,
Macropus eugenii	ENSMEUG00000009370	1 retrocopy	retro_meug_1073,
Tupaia belangeri	ENSTBEG00000014600	1 retrocopy	retro_tbel_1984,
Tursiops truncatus	ENSTTRG00000015444	5 retrocopies	retro_ttru_1220, retro_ttru_1512 , retro_ttru_1627, retro_ttru_1746, retro_ttru_1877,