RetrogeneDB ID: retro_ttru_184

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1512:198123..198537(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C16orf13
• Ensembl ID: ENSTTRG00000009231
• Aliases: None
• Description: chromosome 16 open reading frame 13 [Source:HGNC Symbol;Acc:14141]

Sequence

>retro_ttru_184
AGCATCCTGGCCACCACTCAGGCCCAGGGACTATCCAACGTGAAGGCCCTGCTGTACCTGGACGTGAGGTGAGATTGGGA
GTAGTGGGGTGGGATCCTGCCGCAATCTCTGGATCTGCTACTCTGCATCGACATGAGCCACATCAGCCCCCTGAGCTGCA
CCGAGGGGCTCTTCAGAGCAGCAGGACACCTGCTCAAATGCAAGGCGCTTCTCATCACCTATGGGCCCTGTGCCATCAAC
GGGAAGATTTCTCCCCAGAGTAACGTGGACTTTGACCTGACCCTCCGATGCGGGAACCCAGAGTGGGGGCTGCGGGATAC
AGCCCTTCTGGAGGACCTGGGCCAGGCCAGTGGGCTGCTGCTGGAGAGGATGGTGGACATACCAGCCAACAAGTGCCTAA
TTTTCCAGAAAGAG

Alignment

ORF - retro_ttru_184 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.21 %
• Parental protein coverage: 61.23 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SILATTQAQGLPNVKAPLYLDVRWDWEQWGGILPQSLDLLLCINMSHISPLSCTEGLFRAAGHLLKRKAL
          SILATTQAQGL.NVKA.LYLDVR.DWE.WGGILPQSLDLLLCI.MSHISPLSCTEGLFRAAGHLLK.KAL
Retrocopy SILATTQAQGLSNVKALLYLDVR*DWE*WGGILPQSLDLLLCIDMSHISPLSCTEGLFRAAGHLLKCKAL

Parental  LITYGPYAINGKISPQSNVDFDLTLRRRNPEWGLRDTALLENLGQASQLFLERMVDMPANNKCLIFRKE
          LITYGP.AINGKISPQSNVDFDLTLR..NPEWGLRDTALLE.LGQAS.L.LERMVD.PA.NKCLIF.KE
Retrocopy LITYGPCAINGKISPQSNVDFDLTLRCGNPEWGLRDTALLEDLGQASGLLLERMVDIPA-NKCLIFQKE

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_184 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_184 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019655	1 retrocopy	retro_cfam_1834,
Felis catus	ENSFCAG00000024937	1 retrocopy	retro_fcat_1783,
Tursiops truncatus	ENSTTRG00000009231	1 retrocopy	retro_ttru_184 ,