RetrogeneDB ID: retro_tsyr_1365

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_41434:7877..8594(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBA5
• Ensembl ID: ENSTSYG00000003103
• Aliases: None
• Description: ubiquitin-like modifier activating enzyme 5 [Source:HGNC Symbol;Acc:23230]

Sequence

>retro_tsyr_1365
AACGGCGGGTTAGAAGAAGGAAAGCCTGTTGATCTAGTTCTTAGCTGTGTGGACAACTTTGAAGCTCGAATGACAATAAA
TACAGCTTGTAATGAACTTGGACAAACATGGATGGAATCGGGGGTCAGTGAAAATGCAGTTTCCGGGCACATCCAGCTCA
TAATTCCTGGAGAATCTGCTTGTTTTGCGTGTGCTCCACCACTTGTGGTTGCTGCAAATATTGACGAAAAGACTCTGAAA
CGGGAAGGTGTTTGTGCAGCCAGTCTTCCTACCACCATGGCAGTGGTTGCTGGAATGTTGGTACAAAATGTGTTAAAGTT
ACTATTAAATTTTGGTACTGTTAGTTTCTACCTTGGTTACAATGCAATGCAGGACTTTTTTCCTACTATGTCCATGAAGC
CAAATCCTCAGTGTGATGACAGAAATTGCAGGAAGCAGCAGGAAGAATATAAGAAAAAGGTAGCAGCACTGCCCAAACAA
GAGATTGTACAAGAAGAAGAAGAGATAATACATGAAGATAATGAGTGGGGTATTGAGCTGGTATCTGAGGTTTCAGAAGA
AGAATTGAAAAATTCTTCAGATCCAATTCCAGATTTACCTGCAGGAATTACGGTGGCATATACAGTTCCAAAAAAGCAAG
AACATTCTGTACCTGAGGTAACAGTGGAAGATTCCAGTGAAAGCTTGGAAGACCTCATGGCCAAGATGAAGAACATA

Alignment

ORF - retro_tsyr_1365 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.91 %
• Parental protein coverage: 68.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVV
          NGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVV
Retrocopy NGGLEEGKPVDLVLSCVDNFEARMTINTACNELGQTWMESGVSENAVSGHIQLIIPGESACFACAPPLVV

Parental  AANIDEKSLKREGVCAASLPTTMAVVAGMLVQNVLKLLLNFGTVSFYLGYNAMQDFFPTMSMKPNPQCDD
          AANIDEK.LKREGVCAASLPTTMAVVAGMLVQNVLKLLLNFGTVSFYLGYNAMQDFFPTMSMKPNPQCDD
Retrocopy AANIDEKTLKREGVCAASLPTTMAVVAGMLVQNVLKLLLNFGTVSFYLGYNAMQDFFPTMSMKPNPQCDD

Parental  RNCRKQQEEYKXXXAALPKQEIVQEEEEIIHEDNEWGIELVSEVSEEELKNSSDPIPDLPAGITVAYTVP
          RNCRKQQEEYK...AALPKQEIVQEEEEIIHEDNEWGIELVSEVSEEELKNSSDPIPDLPAGITVAYTVP
Retrocopy RNCRKQQEEYKKKVAALPKQEIVQEEEEIIHEDNEWGIELVSEVSEEELKNSSDPIPDLPAGITVAYTVP

Parental  KKQEHSVPEVTVEDSGESLEDLMAKMKNI
          KKQEHSVPEVTVEDS.ESLEDLMAKMKNI
Retrocopy KKQEHSVPEVTVEDSSESLEDLMAKMKNI

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_1365 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006654	1 retrocopy	retro_dnov_882,
Dasypus novemcinctus	ENSDNOG00000024041	2 retrocopies	retro_dnov_1630, retro_dnov_2468,
Tarsius syrichta	ENSTSYG00000003103	1 retrocopy	retro_tsyr_1365 ,