RetrogeneDB ID: retro_tsyr_1817

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_60266:5541..5927(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OTOR
• Ensembl ID: ENSTSYG00000008851
• Aliases: None
• Description: otoraplin [Source:HGNC Symbol;Acc:8517]

Sequence

>retro_tsyr_1817
ATGGCAAGAAAAATGTTACTTTTCCTCCCGGGCCTTGCAGCCATGTGTGCTGTGCATGGAATATTTATGGACCAACTCTC
TTCCAAGGAGCTCTGGGCAGATGAAAAGTGTGTCTGTACCATTTCTCTGGCTAGTGCCCAAGAAGATTGCAATGCCCCGG
ACTGCAGATTCATTAATGTTAAAAAAAGGGCAGCAGATCTATGTTTACTCAAAGCTGGTAAAAGAAAATTAAACTGGAGG
GAATTGGGGCTGGCAGTGTTTACAGTGACAATCAGGATGAAATGGGCATCGTGGGTTATTTCCCCAGCAACTTAGTAAAG
GAGCAGCGTGTGTACCAGGAAGTCACCAAGGAAGTTTCCACCACAGATATTGACTTCTTCTGTGAG

Alignment

ORF - retro_tsyr_1817 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.62 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MARIMLLFLLGLVAVCAVHGIFMDRLSSKKLCADEECVYTISLANAQEDYNAPDCRFINVKK-GQQIYVY
          MAR.MLLFL.GL.A.CAVHGIFMD.LSSK.L.ADE.CV.TISLA.AQED.NAPDCRFINVKK.GQQIYVY
Retrocopy MARKMLLFLPGLAAMCAVHGIFMDQLSSKELWADEKCVCTISLASAQEDCNAPDCRFINVKK>GQQIYVY

Parental  SKLVKENEAGEFW-AGSVYGDNQDEMGIVGYFPSNLVKEQRVYQEATKEVPTTDIDFFCE
          SKLVKEN..G..W.AGSVY.DNQDEMGIVGYFPSNLVKEQRVYQE.TKEV.TTDIDFFCE
Retrocopy SKLVKEN*TGGNW>AGSVYSDNQDEMGIVGYFPSNLVKEQRVYQEVTKEVSTTDIDFFCE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_1817 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000008851	1 retrocopy	retro_tsyr_1817 ,