RetrogeneDB ID: retro_tsyr_18

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_62361:4342..5389(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000004606
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000004582
• Aliases: None
• Description: None

Sequence

>retro_tsyr_18
ATGTTGGCACTACCACCAAATTTCGGGAATGTACTTTTGGGAGAGACATTTTCCAGTTATGTCGGTGCTCACAATGACAG
CGATCAAGTTGTAAAAGATATATTGGTCAAAGCTGATCTTCAGACACGTTCTCAGCGTTTAAGTCTTTGGGCCTCCAGCG
CTGCAGTGGCTGAACTGAAACCCGATTGTTGTGTTGATGCTGTCATACACCATGAAGTGAAGGAAGTTGGAGCACACAAC
TTGGTATGTGCTGTCAGTTATACAACACAAGGTGGAGAAAAAAGGTCTTTTAGAAAACTCTTCAAATTTCAGGTTCTCAC
ACCATTGGACGTGAAAACTAAATTGTACAATGCAGAGACTGATGAAGTATTTCTCGAAGCCCAGATTCAGAATATTACAA
CCTCCCCCATGTTTATGGAGAAAGTTTCATTGGAGCCATCTGTCATGTATAATGTAACAGAATTAAATTCAGTCAACAAA
GCTGGAGAATGTGTATCGACGTTCGGGTCAAGAGCCTACTTGCAGCCAATGGATACACGCCAGTATTTATATTGTCTAAA
GCCCAAGAAGGAGTTTGCAGAAAAAGCTGGCATTATCAAGGGTGTTACAGTAATTGGAAAATTGGATATAGTATGGAAAA
CAAATCTGGGAGAAAGAGGAAAGTTACAGACCAGCCAGCTTCCAAGAATGGCTCCAGGTTACGGAGACGTTAGGTTGTCT
TTGGAGGCGATCCCAGATACTGTAAACCTAGAAGAGCCTTTTCATGTCACCTGTAAAATTACAAACTGCAGTGAAAGGAC
TATGGATCTGGTTCTGGAGATGTGCAATACCAATTCGATCCACTGGTGCGGTGTTTCCGGAAGACAGCTTGGAAAGCTGC
GTCCGAGTTCCTCTCTCTGCCTTGCTCTTCCTCTGCTGTCTTCAGTCCAGGGACTGCAAAGTGTCTCCGGCTTACGACTA
ACGGACACATTCTTAGAGAGAACATATGAATATGACGACATTGCACAAGTCTGTGTGGTATCTTCGGCTGTTAATGTGGA
AACCTGA

Alignment

ORF - retro_tsyr_18 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.87 %
• Parental protein coverage: 67.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NAEVSIANMTTDEVFLEAQIQNITTSPMFMEKVSLEPSIMYNVTELNSVNKAGEXXXXXXXXXXXQPMDT
          .......N..TDEVFLEAQIQNITTSPMFMEKVSLEPS.MYNVTELNSVNKAGE...........QPMDT
Retrocopy DVKTKLYNAETDEVFLEAQIQNITTSPMFMEKVSLEPSVMYNVTELNSVNKAGECVSTFGSRAYLQPMDT

Parental  RQYLYCLKPKKEFAEKAGIIKGVTVIGKLDIVWKTNLGERGRLQTSQLQRMAPGYGDVRLSLEAIPDTVN
          RQYLYCLKPKKEFAEKAGIIKGVTVIGKLDIVWKTNLGERG.LQTSQL.RMAPGYGDVRLSLEAIPDTVN
Retrocopy RQYLYCLKPKKEFAEKAGIIKGVTVIGKLDIVWKTNLGERGKLQTSQLPRMAPGYGDVRLSLEAIPDTVN

Parental  LEEPFHITCKITNCSERTMDLVLEMCNTSSIHWCGISGRQLGKLHPSSSLCLALTLLSSVQGLQSVSGLR
          LEEPFH.TCKITNCSERTMDLVLEMCNT.SIHWCG.SGRQLGKL.PSSSLCLAL.LLSSVQGLQSVSGLR
Retrocopy LEEPFHVTCKITNCSERTMDLVLEMCNTNSIHWCGVSGRQLGKLRPSSSLCLALPLLSSVQGLQSVSGLR

Parental  LTDTFLKRTYEYDDIAQVCVVSSAVNVET
          LTDTFL.RTYEYDDIAQVCVVSSAVNVET
Retrocopy LTDTFLERTYEYDDIAQVCVVSSAVNVET

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_18 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006026	1 retrocopy	retro_chof_1834,
Dasypus novemcinctus	ENSDNOG00000006386	1 retrocopy	retro_dnov_1288,
Equus caballus	ENSECAG00000011983	1 retrocopy	retro_ecab_1074,
Otolemur garnettii	ENSOGAG00000010787	1 retrocopy	retro_ogar_3287,
Procavia capensis	ENSPCAG00000005623	1 retrocopy	retro_pcap_370,
Pteropus vampyrus	ENSPVAG00000008275	1 retrocopy	retro_pvam_980,
Sorex araneus	ENSSARG00000000639	1 retrocopy	retro_sara_394,
Ictidomys tridecemlineatus	ENSSTOG00000021318	1 retrocopy	retro_itri_1455,
Tarsius syrichta	ENSTSYG00000004582	1 retrocopy	retro_tsyr_18 ,
Tursiops truncatus	ENSTTRG00000006537	1 retrocopy	retro_ttru_1068,