RetrogeneDB ID: retro_tsyr_1682

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_54214:9286..9664(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPT2
• Ensembl ID: ENSTSYG00000002885
• Aliases: None
• Description: palmitoyl-protein thioesterase 2 [Source:HGNC Symbol;Acc:9326]

Sequence

>retro_tsyr_1682
TCCATTTGCAACTACTGGCACGACCCCCACCACAATGACGTGGACCTTGGCGCCAGCAGCTTACTGGCTCTGACCAATGG
GGAAAGGGTCCATCCCAGTGCCATAGCATGACGGAAGAGCTTCTTTTGTGTGGGCCACCTTGTGCTGACTGGGGGCCCTG
ATGATGGCATGATTACTCCTTGTGAGTTCAGCTTCTTTGGTTTCTGTGATGCAAATGAAATGGTCTTGGAAACAGAGAAG
CAGCTGGTTTATCTGCAGGATTCTTTAGGATTGAAGATTCTCTTGGCCCAGGGTGCCACAGTGAGGTGTCCGATGGCCGA
GATCTCCCACAGGGCCTGAGACTCAAACTGCACACTTTGTAAGACCTGCACTGAACCT

Alignment

ORF - retro_tsyr_1682 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.84 %
• Parental protein coverage: 72.83 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SICNYWHDPHHDDLYLNASSFLALINGERDHPNATVWRKNFLRVGRLVLIGGPDDGVITPWQSSFFGFYD
          SICNYWHDPHH.D..L.ASS.LAL.NGER.HP.A...RK.F..VG.LVL.GGPDDG.ITP...SFFGF.D
Retrocopy SICNYWHDPHHNDVDLGASSLLALTNGERVHPSAIA*RKSFFCVGHLVLTGGPDDGMITPCEFSFFGFCD

Parental  ANETVLEMEEQLVYLRDSFGLKTLLARGAIVRCPMAGISHTVWHSNRTLYETCIEP
          ANE.VLE.E.QLVYL.DS.GLK.LLA.GA.VRCPMA.ISH....SN.TL..TC.EP
Retrocopy ANEMVLETEKQLVYLQDSLGLKILLAQGATVRCPMAEISHRA*DSNCTLCKTCTEP

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_1682 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015368	1 retrocopy	retro_dnov_1679,
Tarsius syrichta	ENSTSYG00000002885	1 retrocopy	retro_tsyr_1682 ,