RetrogeneDB ID: retro_tsyr_1700

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_549214:356..569(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COX16
• Ensembl ID: ENSTSYG00000013313
• Aliases: None
• Description: COX16 cytochrome c oxidase assembly homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:20213]

Sequence

>retro_tsyr_1700
TTCTCACAAATTCAGTATGATGCTGTAAAGACTAAAATTGACCTGGAATTGGGGGGGGGGAGCCTCAAAGCAAATAAAGT
ATCTTTAGAGTAAGAATATGAGAAAATAAAAGACTCTACTTTTGATGACTGGAAGAATATTCGAGGACCCAGGCCTTGGG
AAGATCCTGAACACCTCCAAGGAAGAAGTCCAGAAATCGTTAACACTAAGACA

Alignment

ORF - retro_tsyr_1700 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.28 %
• Parental protein coverage: 66.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FTQIRYDAVKIKIDPELEK-KLKANKVSLESEYEKIKDSTFDDWKNIRGPRPWEDPDLLQGRNPEILNTK
          F.QI.YDAVK.KID.E.....LKANKVSLE.EYEKIKDSTFDDWKNIRGPRPWEDP..LQGR.PEI.NTK
Retrocopy FSQIQYDAVKTKIDLEXXXXSLKANKVSLE*EYEKIKDSTFDDWKNIRGPRPWEDPEHLQGRSPEIVNTK

Parental  T
          T
Retrocopy T

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_1700 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000133983	1 retrocopy	retro_hsap_2038,
Macaca mulatta	ENSMMUG00000011089	2 retrocopies	retro_mmul_1368, retro_mmul_1391,
Nomascus leucogenys	ENSNLEG00000001776	1 retrocopy	retro_nleu_2908,
Otolemur garnettii	ENSOGAG00000028663	1 retrocopy	retro_ogar_3045,
Pongo abelii	ENSPPYG00000005951	2 retrocopies	retro_pabe_1663, retro_pabe_1664,
Pan troglodytes	ENSPTRG00000006494	1 retrocopy	retro_ptro_1355,
Rattus norvegicus	ENSRNOG00000047115	1 retrocopy	retro_rnor_1546,
Tarsius syrichta	ENSTSYG00000013313	1 retrocopy	retro_tsyr_1700 ,
Tursiops truncatus	ENSTTRG00000014791	1 retrocopy	retro_ttru_1513,