RetrogeneDB ID: retro_ttru_959

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_8:622..958(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AIF1L
• Ensembl ID: ENSTTRG00000003925
• Aliases: None
• Description: allograft inflammatory factor 1-like [Source:HGNC Symbol;Acc:28904]

Sequence

>retro_ttru_959
GAGCTCCTCTGTGACCAGAAGTACAGTGATGAAGAGAACCTGCCGGAAAAACTTGCCTTTAAAGAGAAGTACCTGGAGTT
TGACCTGAACAGTGAGGGCGAGATTGATCTGATGTCTCTGAAGAGGATGATGGAGAAGCGTGGGGTCCCCAAGACCCACC
TGGAGACGAAGAAGATGATCTCGGAGGTGGCGGGCGCTGTCAGAGACACCACCTCCTACTGAGACTTTGTGAACATGATG
CTGGGAAAACGGTCGGCGGTGCTCAAGCTAGTCATGATGTTTGAAGGAAAAGCCAACGAGAGCAGCCCCAAGCCAGCTGG
CCCCCCTCCAGAGAGG

Alignment

ORF - retro_ttru_959 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.61 %
• Parental protein coverage: 69.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EFLCDQKYSDEENLPEKLAAFKEKYMEFDLNNEGEIDLMSLKRMMEKLGVPKTHLEMKKMISEVTGGFSD
          E.LCDQKYSDEENLPEKLA.FKEKY.EFDLN.EGEIDLMSLKRMMEK.GVPKTHLE.KKMISEV.G...D
Retrocopy ELLCDQKYSDEENLPEKLA-FKEKYLEFDLNSEGEIDLMSLKRMMEKRGVPKTHLETKKMISEVAGAVRD

Parental  TISYRDFVNVMLGKRSAVLKLVMMFEGKANESSPKPVGPPPER
          T.SY.DFVN.MLGKRSAVLKLVMMFEGKANESSPKP.GPPPER
Retrocopy TTSY*DFVNMMLGKRSAVLKLVMMFEGKANESSPKPAGPPPER

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_959 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_959 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000012167	2 retrocopies	retro_mdom_1769, retro_mdom_749,
Otolemur garnettii	ENSOGAG00000016759	2 retrocopies	retro_ogar_821, retro_ogar_93,
Tursiops truncatus	ENSTTRG00000003925	1 retrocopy	retro_ttru_959 ,