RetrogeneDB ID: retro_ttru_1742

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_89487:3720..4269(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AEN
• Ensembl ID: ENSTTRG00000014668
• Aliases: None
• Description: apoptosis enhancing nuclease [Source:HGNC Symbol;Acc:25722]

Sequence

>retro_ttru_1742
CCAAGGGCTGAATCTGGAGGTGCCCCATGCAACAGAAAGCCCACACCCAGGGAATCTGCTGGGCCCTTGCCCAGCAAGTA
TGTGGCTATCGACTGTGAGATGGTGGGCACAGAACCCCGAACGTGGGTGAGTGAGCTGGCCCGCTGCTCTGTGGAGAGTT
AGCACGGCGAGGTCCTCTTCAGCAAGTACGTCTGGACTGAGATGCCCATCATGGACTACTGCAGTCTCTGGAGCGCCATC
ACTGGGCAGCACGTGTGCAAGGCTATCTCTTTCCAGGTGGCCCAGAAAGAGATCCTGAAGCTCCTGAAGGGCAAGGTGCT
GGGAGGCACGTGCTGCACAATGGCTTCCAGGTCTTTCCTCAAGTACGTCTACCCTCGGGGCCAAACTCCGGATACCACTT
ATGTCTCCAACCTCCTCAGTTAGTCCAGCCTCAACACCCAGACCCAGGTCTCTCTTAAGGACCTGACCCTGCAACTACTG
CACAAGAAAATCCAGGTGGGCCAGCAGGGGCACTCCTCAGTGGAAGATGCCAGGACAGCCATGGAGCTC

Alignment

ORF - retro_ttru_1742 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.05 %
• Parental protein coverage: 57.59 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PRAESGGAQGSRKPTPRESAGPLPSKCVAIDCEMVGTGPRGRVSELARCSVVSYHGEVLYDKYIQPEMPI
          PRAESGGA...RKPTPRESAGPLPSK.VAIDCEMVGT.PR..VSELARCSV.S.HGEVL..KY...EMPI
Retrocopy PRAESGGAPCNRKPTPRESAGPLPSKYVAIDCEMVGTEPRTWVSELARCSVES*HGEVLFSKYVWTEMPI

Parental  VDYRTRWSGITRQHMRKAIPFQVAQKEILKLLKGKVLVG-HALHNDFQALKYIH-PRG-QTRDTTYVPSL
          .DY...WS.IT.QH..KAI.FQVAQKEILKLLKGKVL.G.H.LHN.FQ.......P.G.QT.DTTYV..L
Retrocopy MDYCSLWSAITGQHVCKAISFQVAQKEILKLLKGKVLGG<HVLHNGFQVFPQVRLPSG>QTPDTTYVSNL

Parental  LSQPSLHARTRVSLKDLALQLLHKKIQVGQHGHSSVEDAVTAMEL
          LS..SL...T.VSLKDL.LQLLHKKIQVGQ.GHSSVEDA.TAMEL
Retrocopy LS*SSLNTQTQVSLKDLTLQLLHKKIQVGQQGHSSVEDARTAMEL

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_1742 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1742 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011521	1 retrocopy	retro_cfam_2183,
Erinaceus europaeus	ENSEEUG00000007015	1 retrocopy	retro_eeur_364,
Microcebus murinus	ENSMICG00000015849	1 retrocopy	retro_mmur_776,
Tursiops truncatus	ENSTTRG00000014668	1 retrocopy	retro_ttru_1742 ,