RetrogeneDB ID: retro_tsyr_1580

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_498417:215..882(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000013421
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1580
GGGCTTTTGACGTTCAAGATTGTGGCCATAGAATTCTCTCCAGAGAAATGGGAATACCTGGATCCCTGTCAGCAGATATT
GTACAGGAAAGTGATGTTAGAGAACCACAAAAACCTGGTTTTCCTAGGTCTTTCTATCTCTAAGCCAGACCTGATCATGG
CTCTGGAGCAAAGGAAAGAGCCCTGGGATGTGAAGAGAGACAGCATGTTAGCCAAACCTCCAGCTATGATTTCTCAATAC
ACTAAGGGCGTTTTGCCAGAGAAGAGCATAGAAGACTCACTCACAAAGGTGCCAGTGGGAAAACATGGAAAATTTGGCCT
TCAAACCTTATGCTTAAAAAAATCTTGGGAAAGTGTGCATGAGGGTGAAGGGTAGATAGATTACCATTACAAATGTAACA
AGAGATGGAAAGTCTTTCATCAACATTCCAAATATGTTATCCACCAGAGAATCCATATTTCTGAAATGGTTTTCAAACCT
GAATATGGCAAAACATTTAACCAGTCCTCAAAATGTAGTCAACATCAAAAAAAATAGTGGAGGAAATGTACACAATGTAT
ATGGAAAAGCGTTTAGGAAATCATCCTATCTAAATAGACATGAAAGAATCCATAAGGGAGAGAGAGCCTTCAAAAGTGAA
AAATGTGGCAAAGCCATTAGCTATTAC

Alignment

ORF - retro_tsyr_1580 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.73 %
• Parental protein coverage: 60.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GLLSFKDVVIEFSPEEWECLDSPQRILYRTVMLENHTNLVFLXXXXXXPDLIMCLEQRKEPWNVKRHGTL
          GLL.FK.V.IEFSPE.WE.LD..Q.ILYR.VMLENH.NLVFL......PDLIM.LEQRKEPW.VKR...L
Retrocopy GLLTFKIVAIEFSPEKWEYLDPCQQILYRKVMLENHKNLVFLGLSISKPDLIMALEQRKEPWDVKRDSML

Parental  VKLPAVTSHYTEGLLPEKSREDSLAKVPMGKYGKYVLKNLCLQKSWESVHEGKG--RYNAVANNNYKCNK
          .K.PA..S.YT.G.LPEKS.EDSL.KVP.GK.GK..L..LCL.KSWESVHEG.G...Y....N...K...
Retrocopy AKPPAMISQYTKGVLPEKSIEDSLTKVPVGKHGKFGLQTLCLKKSWESVHEGEG*IDYHYKCNKRWKVFH

Parental  SGKVFRVLHQSIHICEMAFKHEYGKMFNQYSKCSQH-QKKSGENIHNICGKVFKKSSYLNRHGRNHRGAR
          ......V.HQ.IHI.EM.FK.EYGK.FNQ.SKCSQH....SG.N.HN..GK.F.KSSYLNRH.R.H.G.R
Retrocopy QHSKY-VIHQRIHISEMVFKPEYGKTFNQSSKCSQH>XXXSGGNVHNVYGKAFRKSSYLNRHERIHKGER

Parental  AFKSEKCGKALSYY
          AFKSEKCGKA.SYY
Retrocopy AFKSEKCGKAISYY

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_1580 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000013421	1 retrocopy	retro_tsyr_1580 ,