RetrogeneDB ID: retro_tsyr_323

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_8244:47566..47907(-)
• Located in intron of: ENSTSYG00000005341

Retrocopy information

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

Parental gene information

• Parental gene symbol: PSMC3IP
• Ensembl ID: ENSTSYG00000007620
• Aliases: None
• Description: PSMC3 interacting protein [Source:HGNC Symbol;Acc:17928]

Sequence

>retro_tsyr_323
AAAGGCCAGGCAGAAGCTGCAGCAGGAGCCACCAGGATCCTCCTGAGGTACCTGCAAGAGCAGAACCAGCCCTACAGCAC
CCAGGACTTGTTCAGGACCCTGTAGTAGGAACACGGCCTGGGCAAGGCGGTGGTGGTGAAGGCACTGGAGCAGCTGACCC
AGCAAAGAAAGATCAAAGAGAAAGTGTATGGCAAGCAGAAGATCTATTTTGCAGAAGTGGACCAGTTTAACACAGTGAGT
GATGCTGACCTTCAAGCCTGGATGCCAAAATCGTGGCCCTTACTGCTAATGTGCAGACCTTGCAGCAGAGCTGCTGCTAC
ATGGAGTTTCAGCTGAAGGAG

Alignment

ORF - retro_tsyr_323 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.91 %
• Parental protein coverage: 55.39 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KGRAEAAAGAAGILLRYLQEQNRPYSAQDVFGNLQGEHGLGKAAVVKALEQLAQQGKVKEKVYGKQKV-F
          KG.AEAAAGA..ILLRYLQEQN.PYS.QD.F..L..EHGLGKA.VVKALEQL.QQ.K.KEKVYGKQK..F
Retrocopy KGQAEAAAGATRILLRYLQEQNQPYSTQDLFRTL**EHGLGKAVVVKALEQLTQQRKIKEKVYGKQKIYF

Parental  ADQDQFDTVSDADLR-DLDVKIVALTANVQSLQQSCRYMEAEMQK
          A..DQF.TVSDADL...LD.KIVALTANVQ.LQQSC.YME.....
Retrocopy AEVDQFNTVSDADLQ<SLDAKIVALTANVQTLQQSCCYMEFQLKE

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_323 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
Microcebus murinus	ENSMICG00000010266	1 retrocopy	retro_mmur_976,
Tarsius syrichta	ENSTSYG00000007620	1 retrocopy	retro_tsyr_323 ,