RetrogeneDB ID: retro_ttru_1190

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_106834:291136..291594(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL16
• Ensembl ID: ENSTTRG00000007609
• Aliases: None
• Description: ADP-ribosylation factor-like 16 [Source:HGNC Symbol;Acc:27902]

Sequence

>retro_ttru_1190
CTTACACAGCTGAGCTCCCAGGATGGGAAGGGCAACCTGGGCGATCCTCCCCCGATGCGGCCCACGGTGGGTACCAACCT
AACTGGACATGGCGGCTCAGAGAAAGATCACCATCCAGGAGCTGGGGGGTGGTGCATGGGCCCCATCTGGTCCAGTTACT
ATGGAAACTGTCATTCTCTCCTGTTCATGGTGGATGCCCCTAACCCCACCCAGCTCTCTGCATCCTCTGCACAGCTCCTG
GGTCTCCTTTCGGCAGAACAACTTGAAGAAGCATCAGTTCTGATTCTCTTCAATAAAATTGACCTGCCCTGTTACATGAC
CATAGAAGAGATGAAGTCGTTAATCGACCTCATTGCTTGTGCCAAGCGGAATATCACCACGTAGAAATCAGTGCCCGGAA
AGGCACTGGCTTGTCAGAAGTGCTGCGCTGGCTCCAGGACATCCACAGAACTAATGGT

Alignment

ORF - retro_ttru_1190 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.76 %
• Parental protein coverage: 81.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LQTLSSRDGKVDLGDLPPTRPTVGTNLT-DIVAQRRITIREL-GG-CMGPIWSSYYGNCRSLLFMVDTSN
          L..LSS.DGK..LGD.PP.RPTVGTNLT.D..AQR.ITI.EL.GG.CMGPIWSSYYGNC.SLLFMVD..N
Retrocopy LTQLSSQDGKGNLGDPPPMRPTVGTNLT>DMAAQRKITIQELGGG<CMGPIWSSYYGNCHSLLFMVDAPN

Parental  PTQLSASCVQLLALLSAEQLAEASVLILFNKIDLPCYMTIEEIKSLIRLPDLIACAKQNITT-VEISARK
          PTQLSAS..QLL.LLSAEQL.EASVLILFNKIDLPCYMTIEE.KSLI...DLIACAK.NITT.VEISARK
Retrocopy PTQLSASSAQLLGLLSAEQLEEASVLILFNKIDLPCYMTIEEMKSLI---DLIACAKRNITT<VEISARK

Parental  GTGLSEVLRWLEDTHRTNG
          GTGLSEVLRWL.D.HRTNG
Retrocopy GTGLSEVLRWLQDIHRTNG

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_1190 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1190 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Procavia capensis	ENSPCAG00000005107	1 retrocopy	retro_pcap_335,
Tursiops truncatus	ENSTTRG00000007609	1 retrocopy	retro_ttru_1190 ,