RetrogeneDB ID: retro_tsyr_2005

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_78106:6460..7096(-)
• 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_2005
AAAGTGGATATTGTTGCCATCAACAACCCCTTCATTGACCTCAACTACATGGTCTACATGTGCCAGTACAACTTCACTCA
CAGAAAATTCCACGACACCATCAAGGCTGAGAACAGGAAGCTTGTCATCAAGGGAAATCCCATCACCACCTTCCAGGATT
AAGAACCCATCAAAATCAAATGAAGGGCTGATTATGTGGTAGAGTCCACTGGTGTCTTCTTCTTCACCTTGAAGAAGGCT
GGGGCTCACTTACAGAAGGAAACCAAAAGGATCGTCATCTCTGCCCCCTCCACTGATGCCCCCATGTTTGTGATGAGTGT
GAACCACTAGAAGTCCCAGAGCAACCTCACGACTGTCAGCAACGCCTCCTGCACCACCTGCTGCTTAGTCCCACTAGCCA
AGGTCATTCATGACAACTTTGGCATCATGTAGGGACTCGTGACCACTTTCCACATTATCACTGCCACCCAGAAGACCATG
GCTGGTCCCTCTGGGAAACGATGGTGTGGCAGCCACAGGACCCTTCAGCACATCATTCCTGCTTCCACCTGCACTGCCAA
GACCATAGGCAAGGTCATCCCTAAGCTGAACAGGAAGCTCTTGGGCATGGCCTTCCATGTCCCTACCACCAGTGTG

Alignment

ORF - retro_tsyr_2005 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.66 %
• Parental protein coverage: 71.17 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KVDIVAFSDPFIDLKYMVYMFQYDST----HGTIMAENGKLVINGNPATIFQE-DPTEIKRSDDNVVKST
          KVDIVA...PFIDL.YMVYM.QY..T....H.TI.AEN.KLVI.GNP.T.FQ...P..IK...D.VV.ST
Retrocopy KVDIVAINNPFIDLNYMVYMCQYNFTHRKFHDTIKAENRKLVIKGNPITTFQD*EPIKIK*RADYVVEST

Parental  GIF---TEKAVAHLQWSAKRVIISAPSTDALRFVMGMNREKFQNSLTNVSSTFCTT--KGPPAKAIHDHF
          G.F.....KA.AHLQ...KR..ISAPSTDA..FVM..N..K.Q..LT.VS...CTT....P.AK.IHD.F
Retrocopy GVFFFTLKKAGAHLQKETKRIVISAPSTDAPMFVMSVNH*KSQSNLTTVSNASCTTCCLVPLAKVIHDNF

Parental  GMVKGLMATVHTITATE-TVDGPSGKLW-RDGRAFQNIIPESPGAVKAVGKTVPELNEKLMGCAFCVPTA
          G...GL..T.H.ITAT..T..GPSGK.W....R..Q.IIP.S....K..GK..P.LN.KL.G.AF.VPT.
Retrocopy GIM*GLVTTFHIITATQKTMAGPSGKRWCGSHRTLQHIIPASTCTAKTIGKVIPKLNRKLLGMAFHVPTT

Parental  TV
          .V
Retrocopy SV

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_2005 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,