RetrogeneDB ID: retro_ttru_1723

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_88559:4578..4986(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM59
• Ensembl ID: ENSTTRG00000003198
• Aliases: None
• Description: transmembrane protein 59 [Source:HGNC Symbol;Acc:1239]

Sequence

>retro_ttru_1723
TGTACAGAAGCATATTCCCGATCTGATGAGCAATATGTTTGCCACCCTGGGTGCCAGAATCAGCCGCCATTTGCTGAATT
GAGACACGAACAACTCATGTCCCTGATGCCAAAACTGCATCTAGTGTTCCCTCTAACTCTGGTAAGGTCATTCTGGAGTG
ACATGATGGACCGTTCACAGAGCTTCTTAACCTCTTCGTGGACTTTTTATCTTCAAGCTGCTGACGGAAAAATAGTTATA
TTCCAGTCTAAGCCAGAAATCCAGTATGCACCACAGTTGGAGCAGGAACCTACAAATTTGAAAGAACCATCGCTAAGCAA
AATGTCCTATCTGCAAATGAGAAGTTCACAAGCACACAGGAACTATCCTGAAGATGGGGAAAGTGATGGCTTTTTAACAT
GTCTCTCC

Alignment

ORF - retro_ttru_1723 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.24 %
• Parental protein coverage: 50.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CTEAYSQSDEQYACHLGCQNQLPFAELRQEQLMSLMPKMHLLFPLTLVRSFWSDMMDSAQSFITSSWTFY
          CTEAYS.SDEQY.CH.GCQNQ.PFAELR.EQLMSLMPK.HL.FPLTLVRSFWSDMMD..QSF.TSSWTFY
Retrocopy CTEAYSRSDEQYVCHPGCQNQPPFAELRHEQLMSLMPKLHLVFPLTLVRSFWSDMMDRSQSFLTSSWTFY

Parental  LQADDGKIVIFQSKPEIQYAPQLEQEPTNLKEPSLSKMSYLHMRSSHAHRNYLEDGERDGFLRCLS
          LQA.DGKIVIFQSKPEIQYAPQLEQEPTNLKEPSLSKMSYL.MRSS.AHRNY.EDGE.DGFL.CLS
Retrocopy LQAADGKIVIFQSKPEIQYAPQLEQEPTNLKEPSLSKMSYLQMRSSQAHRNYPEDGESDGFLTCLS

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_1723 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1723 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009526	1 retrocopy	retro_btau_526,
Felis catus	ENSFCAG00000007737	1 retrocopy	retro_fcat_433,
Tursiops truncatus	ENSTTRG00000003198	3 retrocopies	retro_ttru_1079, retro_ttru_1723 , retro_ttru_332,