RetrogeneDB ID: retro_ttru_1692

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_86142:29316..29763(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12orf5
• Ensembl ID: ENSTTRG00000016535
• Aliases: None
• Description: chromosome 12 open reading frame 5 [Source:HGNC Symbol;Acc:1185]

Sequence

>retro_ttru_1692
ATGACGCGCTTTGCTCTGACAGTGGTCCGGCATGGAGAAACAAGACTTAACAAGGAGAAAATCATTCAAGGACAAGGAAT
AGATGAGCCTCTTTCAGAAACTGGATTTAAACAAGCAGCTGCTGCTGGCATATTCCTTAATAACGTGAAGTTTACTCACA
TTTTCTCCAGTGACCTCATGAGGACAAAGCAGACCGTGCACGGAAGTTTGGAGAAGAGCTAATTTTGCAAAGATATGACA
GTAAAGTATGATTCAAGACTTCGAGAAAGTAAATACGGGGTTGCAGAAGGCTGGCCGCTGAGTGAGTTAAGGGCCATGGC
CAAAGCAGCTGGGCAGGAGTGCCCTGTGTTCACACCGCCCGGAGGAGAGACCTTGGACCAGGTGAAAATGCGTGGAAAAG
ACTTCTTTGAATTTCTTTGTCAGCTGATCCTGAAAGAAGCAGGTCAG

Alignment

ORF - retro_ttru_1692 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.64 %
• Parental protein coverage: 55.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTRFALTVVRHGETRLNKEKILQGQGIDEPLSETGFKQAAAAGIFLNNVKFTHIFSSDLMRTKQTVHGIL
          MTRFALTVVRHGETRLNKEKI.QGQGIDEPLSETGFKQAAAAGIFLNNVKFTHIFSSDLMRTKQTVHG.L
Retrocopy MTRFALTVVRHGETRLNKEKIIQGQGIDEPLSETGFKQAAAAGIFLNNVKFTHIFSSDLMRTKQTVHGSL

Parental  EKSKFCKDMTVKYDSRLRERKYGVAEGSPLSELRAMAKAAGQECPVFTPPGGETLDQVKMRGKDFFEFLC
          EKS.FCKDMTVKYDSRLRE.KYGVAEG.PLSELRAMAKAAGQECPVFTPPGGETLDQVKMRGKDFFEFLC
Retrocopy EKS*FCKDMTVKYDSRLRESKYGVAEGWPLSELRAMAKAAGQECPVFTPPGGETLDQVKMRGKDFFEFLC

Parental  QLILKEAGQ
          QLILKEAGQ
Retrocopy QLILKEAGQ

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_1692 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1692 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013237	2 retrocopies	retro_chof_2605, retro_chof_792,
Mus musculus	ENSMUSG00000038028	1 retrocopy	retro_mmus_2365,
Tursiops truncatus	ENSTTRG00000016535	1 retrocopy	retro_ttru_1692 ,