RetrogeneDB ID: retro_ttru_295

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1798:54940..55385(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: YEATS4
• Ensembl ID: ENSTTRG00000013951
• Aliases: None
• Description: YEATS domain containing 4 [Source:HGNC Symbol;Acc:24859]

Sequence

>retro_ttru_295
GAAAGAAAAGAGGATGGGCACACCCATCCGTGGACAGTATATGTAAAACCATATCGAAATGAGGATATGTCAGCATATGT
GAAGAAAATCCAATTTAAATTACATGAAAGCTATGGCAGTCCTTTAAGAGTTGTTACTAAGCCTCCCTATGGAATTACTG
AAGCAGGCTGGGGTGAATTCGAAATAGTCATCAAAGTATTTTTCATTGATCCTAATGAAAGACCTGTAACCCTATATCAT
TTATTAAAGCTATTTCAATCAGACACCAATGCAATGCTGGGAAAAAAGACAGTGGTTTCAGAGCTCTATGATGAAATGAT
ATTTCAAGACGCAATCAGCGATGATACAACAATTATTAACATCTCGTCAGCTTACCTTAGGATCCTATAAGCATGAAACA
GAATTTGCAGAACTTGAAGTGAAGACCAGAGAAAAATTAGAAGCT

Alignment

ORF - retro_ttru_295 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90. %
• Parental protein coverage: 65.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KREEDGHTHQWTVYVKPYRNEDMSAYVKKIQFKLHESYGNPLRVVTKPPYEITETGWGEFEIIIKIFFID
          .R.EDGHTH.WTVYVKPYRNEDMSAYVKKIQFKLHESYG.PLRVVTKPPY.ITE.GWGEFEI.IK.FFID
Retrocopy ERKEDGHTHPWTVYVKPYRNEDMSAYVKKIQFKLHESYGSPLRVVTKPPYGITEAGWGEFEIVIKVFFID

Parental  PNERPVTLYHLLKLFQSDTNAMLGKKTVVSEFYDEMIFQD-PTAMMQQLLTTSRQLTLGAYKHETEFAEL
          PNERPVTLYHLLKLFQSDTNAMLGKKTVVSE.YDEMIFQD...AM.QQLL.TSRQLTLG.YKHETEFAEL
Retrocopy PNERPVTLYHLLKLFQSDTNAMLGKKTVVSELYDEMIFQD>QSAMIQQLL-TSRQLTLGSYKHETEFAEL

Parental  EVKTREKLEA
          EVKTREKLEA
Retrocopy EVKTREKLEA

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_295 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_295 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000010793	1 retrocopy	retro_etel_836,
Microcebus murinus	ENSMICG00000002467	1 retrocopy	retro_mmur_1433,
Monodelphis domestica	ENSMODG00000020377	1 retrocopy	retro_mdom_1545,
Nomascus leucogenys	ENSNLEG00000003837	1 retrocopy	retro_nleu_816,
Oryctolagus cuniculus	ENSOCUG00000011552	1 retrocopy	retro_ocun_1414,
Tursiops truncatus	ENSTTRG00000013951	2 retrocopies	retro_ttru_226, retro_ttru_295 ,