RetrogeneDB ID: retro_ttru_529

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_2594:43934..44419(-)
• Located in intron of: ENSTTRG00000008657

Retrocopy information

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

Parental gene information

• Parental gene symbol: TPPP3
• Ensembl ID: ENSTTRG00000000453
• Aliases: None
• Description: tubulin polymerization-promoting protein family member 3 [Source:HGNC Symbol;Acc:24162]

Sequence

>retro_ttru_529
TGGAGGAGGTTTACGGTGCACTGGTACACCAGAGCCACCTGTAAGGAGATGCATGGCAAGAACTGGTCCAAGCTGTGCAG
GGACTGCCAGGTGATCGATGGCAGGAACATGACCGTCACCGACATGGACATCATCTTCAGCAAGATCAAGGGCAAGTCCT
GCAGGACCATCACATTTGAGCAGTTCAAGGAAGCTCTGGAGGAGCTGGCCAAGAAGAGATTCAAAGACAAGAGCCGTGAG
GAGGCCACCCAAGAGGTGCACAGGCTCACTGAGGGCAAGGCCCCCATCATTTCGGGGGTGATGAAAGCCATCTCCTCGCT
CACCGTGTCGTGGCTCACGGACACCACCAAGTTCACGGGCTCCACAAGGAGTGCTTCGACCCGTCCAGAAGGCGCAAGGG
CAGGGCGGGCCACGTGGACCTGGTGGACGAGTCAGGCTATGTGCCGGGCTACAAGCACGCGGGCACCTACGACCAGAAGG
TGCAG

Alignment

ORF - retro_ttru_529 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.83 %
• Parental protein coverage: 92.05 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FRKFAIHGDPKASGHELNGKNWAKLCKDCKVADGKAVTGTDVDIVFSKVKGKSARVINYEEFKKALEELA
          .R.F..H....A...E..GKNW.KLC.DC.V.DG...T.TD.DI.FSK.KGKS.R.I..E.FK.ALEELA
Retrocopy WRRFTVHWYTRATCKEMHGKNWSKLCRDCQVIDGRNMTVTDMDIIFSKIKGKSCRTITFEQFKEALEELA

Parental  PKRFKGKSKEEAFDAICQLVAGKEPANVGVTKAKTGGAVERLTDTSKYTGS-HKERFDESGKGKGIAGRQ
          .KRFK.KS.EEA......L..GK.P...GV.KA.....V..LTDT.K.TGS.HKE.FD.S...KG.AG..
Retrocopy KKRFKDKSREEATQEVHRLTEGKAPIISGVMKAISSLTVSWLTDTTKFTGS<HKECFDPSRRRKGRAGHV

Parental  DILDDSGYVSAYKNAGTYDAKVK
          D..D.SGYV..YK.AGTYD.KV.
Retrocopy DLVDESGYVPGYKHAGTYDQKVQ

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_529 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_529 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	ENSPCAG00000010498	1 retrocopy	retro_pcap_24,
Tursiops truncatus	ENSTTRG00000000453	1 retrocopy	retro_ttru_529 ,