RetrogeneDB ID: retro_tsyr_1401

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_427382:697..1259(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000002171
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1401
CACAGCACCATCAAGGCTGAGAAAAGGATGCTTGTCATCAATGGAAATCCCACCACCAACTTCCAGGAACAAGATCCCAC
CAAAATCAAATGGTACAACGCCAGCGCTGATTATGTGGTAGAATTACCAGCGTCTTCACTACCTTAGAGAAGGCTGGAGC
TCACTTAAGGGGGTGCCAAAGAGTCATCATCTCTGCCCTCTCCACTGATACCCTCACATTTATGATGGACATGAACCACG
AGAAGTATCGAAACAACCTCATGACCATCAGCAATGCCTCTTGCAATACCAACTGCTTAGCCCCCCTGGCCAAAGTCATC
CACGAAAATCTTGGCATCGTGGAGGGACTCATGACCACTGTCTATGCCATCATTGCCTCTCAGAAGACCATGGATGGCCC
TTTGGGAAGCTATGGTGGGACAGCTGCAGGGCTCTCCAGAACATCATTCCTTCATCCACCAGTACTGCCAGGGCTGTGGT
CAAGGTCATCCCAGAGATGAAAAGGAAGCTCACAGCCATGAACTTCCATATCTCCACTGTCAGTGTGTCAGTTGTGGACC
TG

Alignment

ORF - retro_tsyr_1401 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.83 %
• Parental protein coverage: 63.7 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HGTIMAENGKLVINGNPATIFQE-DPTEIK---RSDDNVV-KSTGIFT--EKAVAHLQWSAKRVIISAPS
          H.TI.AE...LVINGNP.T.FQE.DPT.IK....S.D.VV...T..FT..EKA.AHL.....RVIISA.S
Retrocopy HSTIKAEKRMLVINGNPTTNFQEQDPTKIKWYNASADYVV<RITSVFTTLEKAGAHLR-GCQRVIISALS

Parental  TDALRFVMGMNREKFQNSLTNVSSTFCTTK--GPPAKAIHDHFGMVKGLMATVHTITATE-TVDG-PSGK
          TD.L.F.M.MN.EK..N.L...S...C.T....P.AK.IH...G.V.GLM.TV..I.A...T.DG.P.GK
Retrocopy TDTLTFMMDMNHEKYRNNLMTISNASCNTNCLAPLAKVIHENLGIVEGLMTTVYAIIASQKTMDG<PFGK

Parental  LWRDG-RAFQNIIPESPGAVKAVGKTVPELNEKLMGCAFCVPTATVPFVDL
          LW.D..RA.QNIIP.S.....AV.K..PE...KL....F...T..V..VDL
Retrocopy LWWDSCRALQNIIPSSTSTARAVVKVIPEMKRKLTAMNFHISTVSVSVVDL

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_1401 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000002171	12 retrocopies	retro_tsyr_1094, retro_tsyr_1401 , retro_tsyr_1496, retro_tsyr_1565, retro_tsyr_2005, retro_tsyr_2047, retro_tsyr_302, retro_tsyr_436, retro_tsyr_450, retro_tsyr_454, retro_tsyr_461, retro_tsyr_69,