RetrogeneDB ID: retro_ttru_332

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1889:171529..172033(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM59
• Ensembl ID: ENSTTRG00000003198
• Aliases: None
• Description: transmembrane protein 59 [Source:HGNC Symbol;Acc:1239]

Sequence

>retro_ttru_332
TCTGCACAGAGCTTCATAACCTCTTCGTGGACTTTTTGTTTTCAAGCTGATGATGGAAAAACAGTTATATTCCAGTTGAA
GCCAGAAGTCCAGTATGCACCACAGTTGGAGCAGGAGGCCTAAATTTTCGAAAGAACCGTCACTAAGCAAAATGTCCTCA
GATCTTCAAACGAGAAGTTCACAAGCACATAGGAACTATCTTGAAGACGGAGAAAGTGATGACTTTTTAAGATGTCTCTC
TCTTATTCCAGGTGGAATTTAACCGTGACTCTTGTCCTCTCCCTGATGGTATTGCTCTGGATTTGTTGTGCAACTGTGGC
TACAGCTGCAGAGCAGTATGTTCCCTCTGAGGAGCTGAGTATCTGTGGTGACTTGGAATTTGTGAATGAACAAAAGCTAA
ACAGATATCCAGCTTCTTCTCTTGTGGTTGCTAGATCTAAAGGTGAAGATCACAAAGAAGCAGGGCCTCTACCTGCAAAA
ATGAATCTTGCTCATTCAGAAATT

Alignment

ORF - retro_ttru_332 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.53 %
• Parental protein coverage: 61.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SAQSFITSSWTFYLQADDGKIVIFQSKPEIQYAPQLEQE-PTNLKEPSLSKMSY-LHMRSSHAHRNYLED
          SAQSFITSSWTF..QADDGK.VIFQ.KPE.QYAPQLEQE.P...KEPSLSKMS..L..RSS.AHRNYLED
Retrocopy SAQSFITSSWTFCFQADDGKTVIFQLKPEVQYAPQLEQE>PKFSKEPSLSKMSSDLQTRSSQAHRNYLED

Parental  GERDGFLRCLSLNSG-WILTMTLVLSVMVLLWICCATVATAVEQYVPSEKLSIYGDLEFVNEQKLNRYPA
          GE.D.FLRCLSL..G.W.LT.TLVLS.MVLLWICCATVATA.EQYVPSE.LSI.GDLEFVNEQKLNRYPA
Retrocopy GESDDFLRCLSLIPG<WNLTVTLVLSLMVLLWICCATVATAAEQYVPSEELSICGDLEFVNEQKLNRYPA

Parental  SSLVVVRSKGEDHEEAGPLPAKVNLAHSEI
          SSLVV.RSKGEDH.EAGPLPAK.NLAHSEI
Retrocopy SSLVVARSKGEDHKEAGPLPAKMNLAHSEI

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_332 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_332 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
Bos taurus	ENSBTAG00000009526	1 retrocopy	retro_btau_526,
Felis catus	ENSFCAG00000007737	1 retrocopy	retro_fcat_433,
Tursiops truncatus	ENSTTRG00000003198	3 retrocopies	retro_ttru_1079, retro_ttru_1723, retro_ttru_332 ,