RetrogeneDB ID: retro_ttru_247

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1680:231283..232644(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ILVBL
• Ensembl ID: ENSTTRG00000015412
• Aliases: None
• Description: ilvB (bacterial acetolactate synthase)-like [Source:HGNC Symbol;Acc:6041]

Sequence

>retro_ttru_247
GTTCAAGCCGCGCGCCTGTTCTCTTTGACACGAAGGGAGCGGAATTCCTCTGGAGTTAGCGCCATTTCCTGCCCGGTGTT
TGTGGAACTGCCTATCGATGTGCTGTACCCCTACTTCATGGTTCAGAAGGAGATGGTGCCAGCTAAGCCGCCCAAGGGCC
TCGTGGGTCAAGGGGTCTCCTGGTACTTAGAGAATTACCTGGCCAACCTCTTTGCAGGAGCCTGGGAGCCTCAGCCTGAG
GGGCCTCTGCCTCTGGACATCCCTCAGGCTTCCCCTCAGCAGGTTCAGCGCTGTGTTGAGATCCTGAGCCGGGCCAAAAG
GCCCCTTGTGCTGCTCGGGAGCCAGGCCCTGTTGCCTCCGACACCCTCAGACAAACTTCGGGTTGCTGTGGAGACCCTGG
GTGTCCCCTGCTTCCTGGGCGGGATGGCGCGGGGACTGCTGGGCCGGAGCCACCCCCTTCACATCCGGCAGAACCGCAGC
GCCGCCCTGAAGAAGGCAGATGTTGTGGTCCTGGCAGGAACGGTGTGTGACTTCCGTCTGTCCTATGGCCGTGTCCTCAG
CCGCAGCAGCAAGATCATCATCGTCAACCGTAACCGGAAAGAGATGTTGATGAACTCAGACATGTTCTGGAAGCCCCAGG
AGGCTGTGCAGGGAGACGTGGGCTCCTTCATGGTGAAGCTGGCACAGGGCCTTCAGGGCCAGACATGGGCCTCAGACTGG
GCAGAGGAGCTTCGGCAGGCTGACCGACAGAAGGAGCAGACCTTTAGGGAGAAGGCATCGATGCCTGTAGCCGAGCACCT
TAACCCGGTGCGGGTACTGCAGCTGGTGGAGGAAACTCTGCCCGACAACTCCATTCTGGTGGTCGATGGTGGGGACTTCG
TGAGTACAGCCGCCCACCTGGTGCAGCCCCGTGGCCCCCTGCGCTGGCTCGATCCTGGGGCCTTCGGTACTCTGGGGGTT
GGTGCGGGATTTGCACTTGGCGCCAAGCTGTGTCAGCCGGATGCCGAGGTCTGGTGCCTGTTTGGGGATGGAGCCTTTGG
CTACAGCCTCATCGAATTTGACACCTTCGTCAGACACAAGATCCCAGTGATGGCTCTGATAGGGAACGATGCTGGCTGGA
CCCAGATTTCCCGGGAGCAGGTGCCCTGTCTGGGCAGCAATGTGGCCTGTGGCTTGGCTTACACGGGTTATCACAAGGCG
GCCATGGGGCTGGGAGCCCAGGGCTTGCTACTTTCACGAGAGAGTGAGGATCAGGTGGTCAAGGTGCTGCACGATGCCCA
GCAGCAGTGCCAAGATGGCCACCCAGTCGTGGTCAACATCCTCATCGGGAGGACGGACTCCGAGATGGCTCCATTGCCGT
G

Alignment

ORF - retro_ttru_247 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.73 %
• Parental protein coverage: 77.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VQRVREIIPTLRAAMAAAQSGTPGPVFVELPIDVLYPYFMVQKEMVPAKPPKGLVGQGVSWYLENYLANL
          VQ..R....T.R.......S....PVFVELPIDVLYPYFMVQKEMVPAKPPKGLVGQGVSWYLENYLANL
Retrocopy VQAARLFSLTRRERNSSGVSAISCPVFVELPIDVLYPYFMVQKEMVPAKPPKGLVGQGVSWYLENYLANL

Parental  FAGAWEPQPEGPLPLDIPQASPQQVQRCVEILSRAKRPLVLLGSQALLPPTPSDKLRVAVETLG-PCFLG
          FAGAWEPQPEGPLPLDIPQASPQQVQRCVEILSRAKRPLVLLGSQALLPPTPSDKLRVAVETLG.PCFLG
Retrocopy FAGAWEPQPEGPLPLDIPQASPQQVQRCVEILSRAKRPLVLLGSQALLPPTPSDKLRVAVETLGVPCFLG

Parental  GMARGLLGRSHPF-IRQNRSAALKKADVVVLAGTVCDFRLSYGRVLSRSSKIIIVNRNRKEMLMNSDMFW
          GMARGLLGRSHP..IRQNRSAALKKADVVVLAGTVCDFRLSYGRVLSRSSKIIIVNRNRKEMLMNSDMFW
Retrocopy GMARGLLGRSHPLHIRQNRSAALKKADVVVLAGTVCDFRLSYGRVLSRSSKIIIVNRNRKEMLMNSDMFW

Parental  KPQEAVQGDVGSFMVKLAQGLQGQTWASDWAEELRQADRQKEQTFREKASMPVAEHLNPVRVLQLVEETL
          KPQEAVQGDVGSFMVKLAQGLQGQTWASDWAEELRQADRQKEQTFREKASMPVAEHLNPVRVLQLVEETL
Retrocopy KPQEAVQGDVGSFMVKLAQGLQGQTWASDWAEELRQADRQKEQTFREKASMPVAEHLNPVRVLQLVEETL

Parental  PDNSILVVDGGDFVGTAAHLVQPRGPLRWLDPGAFGTLGVGAGFALGAKLCQPDAEVWCLFGDGAFGYSL
          PDNSILVVDGGDFV.TAAHLVQPRGPLRWLDPGAFGTLGVGAGFALGAKLCQPDAEVWCLFGDGAFGYSL
Retrocopy PDNSILVVDGGDFVSTAAHLVQPRGPLRWLDPGAFGTLGVGAGFALGAKLCQPDAEVWCLFGDGAFGYSL

Parental  IEFDTFVRHKIPVMALIGNDAGWTQISREQVPCLGSNVACGLAYTGYHKAAMGLGAQGLLLSRESEDQVV
          IEFDTFVRHKIPVMALIGNDAGWTQISREQVPCLGSNVACGLAYTGYHKAAMGLGAQGLLLSRESEDQVV
Retrocopy IEFDTFVRHKIPVMALIGNDAGWTQISREQVPCLGSNVACGLAYTGYHKAAMGLGAQGLLLSRESEDQVV

Parental  KVLHDAQQQCQDGHPVVVNILIGRTD-FRDGSIAV
          KVLHDAQQQCQDGHPVVVNILIGRTD..RDGSIAV
Retrocopy KVLHDAQQQCQDGHPVVVNILIGRTD<LRDGSIAV

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_247 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_247 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
Bos taurus	ENSBTAG00000015186	1 retrocopy	retro_btau_1619,
Tursiops truncatus	ENSTTRG00000015412	1 retrocopy	retro_ttru_247 ,