RetrogeneDB ID: retro_ttru_888

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_510:106969..107458(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VHLL
• Ensembl ID: ENSTTRG00000007560
• Aliases: None
• Description: von Hippel-Lindau tumor suppressor-like [Source:HGNC Symbol;Acc:30666]

Sequence

>retro_ttru_888
CGGCAGGAGATGGAGGCAGGGCGGCCGCGGCCGATGGTGCGCTCAGTGAACACGCGCGAGCCGTCCCAGGTCATCTTCTA
CAACCGCAGCCCGCGCGTGGTGCTGCCCGTGTGGCTCAACTTCGACGGCGAGGTGCAGCCCTACCTGACGCTGCCCCCCA
GCACGGGCCGCCGAATCCATAGCTACCGGGGTCATCTTTGGGTCTTCCTAGATGCTGGGACATCTGATGGGCTTCTAGTT
AACCAAACCGAGCTGTTTGTGCCGTCTCGCAATGTTGATGGACAGCCTATTTTTGCAAACATCACACTACCAGTGTACAC
CCTGAAACAGTGGTGCCTCCAGGTTGTGCGAAGCCTAGGCAAGCCTGAGGATTACAGGAGACTGGACATCGCGAGATCCC
TCTAGGAAGATCTGGAGGACCACCCAAATGTGTGGAAGGACCTGGAGCGGTTGCCCCAGGAGCATATTGAAAATCAGTGG
ATGGCAGAG

Alignment

ORF - retro_ttru_888 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.57 %
• Parental protein coverage: 79.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QQEMEAGRPRPMLRSVNTREPSQVIFCNRSPRVVLPVWLNFDGEPQPYPTLPPGTGRRIHSYRGHLWLFR
          .QEMEAGRPRPM.RSVNTREPSQVIF.NRSPRVVLPVWLNFDGE.QPY.TLPP.TGRRIHSYRGHLW.F.
Retrocopy RQEMEAGRPRPMVRSVNTREPSQVIFYNRSPRVVLPVWLNFDGEVQPYLTLPPSTGRRIHSYRGHLWVFL

Parental  DAGTSDGLLVNQTELFVPSLNVDGQPIFANITLPVYTLKERCLQVVRSLVKPEDYRRLDIARSLYEDLED
          DAGTSDGLLVNQTELFVPS.NVDGQPIFANITLPVYTLK..CLQVVRSL.KPEDYRRLDIARSL.EDLED
Retrocopy DAGTSDGLLVNQTELFVPSRNVDGQPIFANITLPVYTLKQWCLQVVRSLGKPEDYRRLDIARSL*EDLED

Parental  HPNVWKDLERLTQEHIENQRMGD
          HPNVWKDLERL.QEHIENQ.M..
Retrocopy HPNVWKDLERLPQEHIENQWMAE

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_888 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_888 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000033933	1 retrocopy	retro_mmus_1638,
Tursiops truncatus	ENSTTRG00000007560	1 retrocopy	retro_ttru_888 ,