RetrogeneDB ID: retro_ttru_709

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_313:36361..37113(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TTLL1
• Ensembl ID: ENSTTRG00000007375
• Aliases: None
• Description: tubulin tyrosine ligase-like family, member 1 [Source:HGNC Symbol;Acc:1312]

Sequence

>retro_ttru_709
AGTACCAAGGAAGCCTACGTGATCTCTCTGTACATTAACAACCCGTTACTAATCAGCGGCAGGAACTTTGACCTGCGCTT
GTATATTCTGGTGTCTACGTACCGCCCACTGCGCTACTACATGCATAAACTTGGATTTTGCTGCTTTTGCACAGTAAAAT
ACACCCCGAGTACCAGTGAGCTGGATAACATGTTTGTTCATCTCACCAACGTTGCCATTCAGAAACAAGGGGAGGACTAC
AACCACATCCACGGGGGCACGTGGACCGTGAACAACCTGTGGCTCTACCTGGAGAGCATCTGAGGCAAGGAGGTGACCAG
CAAGCTGTTCAACGAGATCCACTGGATCTTCATGCAGTCCCTGAAGGCCGTGGCACCCATGATGAACAACGACAAACACT
GCTTTGAGTGCTACGGCTACGACATCATCATCAACGACAAGCTGAAGCCCTGGCTGATCGAGGTGAATGCTCCCCATCCC
TCACTTCCAGCACTGCCAACGACCAAATCCTTAAGTATAACCTGATTAATGACACCCTCAACATCGCGGTCCCTAACGTT
GAAATTCCAGACTGTAAATGAAACAAGTCACCCCCAAAGGAAGTCCTTGGCAATTATGAAATTCTGTATGACGAGGAGCT
GGCACAAGGCGACAAGGCTGACCAAGGGCTGAGAAGTCCACCGGGCCAGTCGCTGGGGCCCAGAGGGGGCCGATCGAGAG
ACTCCAGGACAACCGTCCTCACAACCTGGAAG

Alignment

ORF - retro_ttru_709 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.49 %
• Parental protein coverage: 59.34 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  STKEAYVISLYINNPLLIGGRKFDLRLYVLVSTYRPLRCYMYKLGFCRFCTVKYTPSTSELDNMFVHLTN
          STKEAYVISLYINNPLLI.GR.FDLRLY.LVSTYRPLR.YM.KLGFC.FCTVKYTPSTSELDNMFVHLTN
Retrocopy STKEAYVISLYINNPLLISGRNFDLRLYILVSTYRPLRYYMHKLGFCCFCTVKYTPSTSELDNMFVHLTN

Parental  VAIQKHGEDYNHIHGGKWTVHNLRLYLESTRGKEVTSRLFDEIHWIIVQSLKAVAPVMNNDKHCFECYGY
          VAIQK.GEDYNHIHGG.WTV.NL.LYLES..GKEVTS.LF.EIHWI..QSLKAVAP.MNNDKHCFECYGY
Retrocopy VAIQKQGEDYNHIHGGTWTVNNLWLYLESI*GKEVTSKLFNEIHWIFMQSLKAVAPMMNNDKHCFECYGY

Parental  DIIIDDKLKPWLIEVNA-SPSLTSSTANDRILKYNLINDTLNIAVPNGEIPDCKWNKSPPKEVLGNYEIL
          DIII.DKLKPWLIEVNA.SPSLTSSTAND.ILKYNLINDTLNIAVPN.EIPDCK.NKSPPKEVLGNYEIL
Retrocopy DIIINDKLKPWLIEVNA<SPSLTSSTANDQILKYNLINDTLNIAVPNVEIPDCK*NKSPPKEVLGNYEIL

Parental  YDEELAQGDGPDRELRSRPGQSLGPRGGRSRDSGRTVLTTWK
          YDEELAQGD..D..LRS.PGQSLGPRGGRSRDS..TVLTTWK
Retrocopy YDEELAQGDKADQGLRSPPGQSLGPRGGRSRDSRTTVLTTWK

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_709 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_709 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
Tursiops truncatus	ENSTTRG00000007375	1 retrocopy	retro_ttru_709 ,
Drosophila melanogaster	FBgn0030823	1 retrocopy	retro_dmel_24,