RetrogeneDB ID: retro_tsyr_461

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_121783:3646..4501(-)
• 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_461
AAAGTGATTATTGTCACCATCAATGACCCCTTCATTGACCTCAACTACATGGTGTACATGTTCCAATATGACTCCACCCA
TGGCAAGTTCCATGGCACTGTCAAGGCTGAAAACAGGAAGCTTGTCATCAATGGAAGTCCTATTACCATCTTCCAGGAGC
GTTGTCCTAGCAAAATCAAATGGGGTGACGCCAGGACTGATTATATAGTGGAGTCCACCGTTATCTTCACTACCTTAGAG
AAGGCTGGGGTTCGCTTGCAGGGGGGAGCCAAAAGGGTCATCATCTCTGCCCCCTCCGCCGACACCCCCATGTTTGCGAT
GGGCGTGAGCCATGAGAAGTACCAGAACAACCTCACGATTGTCAGCAACGCCTCTTGTGCCACAAACAGCGTAGTTCCCC
TGGCCAAGGTCATCCACAACAACTTGGGCATCGTGGAGGGACTCATGACCACCCTCCATACCATCACTGCCACCCAGAAG
ACTGTGGATGACCCTTCTGGGAAGCTATGGCACAATGACCGCAGGGTCCTCTAGAATATCATCCCTTCATCCACTGGGGC
TGCCAAGGCCCTGGGCAAGGTCATCCCTGAGTTGAACGGGAAGTTCACGGGCATGGCCTCCCATGTCCCCACCACCAATG
TGTCCGTTATGAACCTGACCTGCTGCCTGGAGAAACCCACCCGATATGATGACATCAAGAAGGTAGTGAAGCAGGCATCT
GATGGCCCCCTCAAGGGCATCCTGAGCGTCACTGAGCACCATGTTGTGTCCTCTAACTTTAACAGCAACACCCACTCTTC
CACCTTTGATGCTGGGACTGGCATTGCCCTCAACGACCACTTTGTCAAACTCATC

Alignment

ORF - retro_tsyr_461 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.05 %
• Parental protein coverage: 95.73 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KVDIVAFSDPFIDLKYMVYMFQYDST----HGTIMAENGKLVINGNPATIFQED-PTEIKRSD---DNVV
          KV.IV...DPFIDL.YMVYMFQYDST....HGT..AEN.KLVING.P.TIFQE..P..IK..D...D..V
Retrocopy KVIIVTINDPFIDLNYMVYMFQYDSTHGKFHGTVKAENRKLVINGSPITIFQERCPSKIKWGDARTDYIV

Parental  KSTGIFT--EKAVAHLQWSAKRVIISAPSTDALRFVMGMNREKFQNSLTNVSSTFCTTKG--PPAKAIHD
          .ST.IFT..EKA...LQ..AKRVIISAPS.D...F.MG...EK.QN.LT.VS...C.T....P.AK.IH.
Retrocopy ESTVIFTTLEKAGVRLQGGAKRVIISAPSADTPMFAMGVSHEKYQNNLTIVSNASCATNSVVPLAKVIHN

Parental  HFGMVKGLMATVHTITATE-TVDGPSGKLW-RDGRAFQNIIPESPGAVKAVGKTVPELNEKLMGCAFCVP
          ..G.V.GLM.T.HTITAT..TVD.PSGKLW..D.R...NIIP.S.GA.KA.GK..PELN.K..G.A..VP
Retrocopy NLGIVEGLMTTLHTITATQKTVDDPSGKLWHNDRRVL*NIIPSSTGAAKALGKVIPELNGKFTGMASHVP

Parental  TATVPFVDLTCHLEKPAKYDDINKVVK-AAQGPLKVLLGCIEHQVVSSD-NSDNHSSTFDAGAGIALKSC
          T..V....LTC.LEKP..YDDI.KVVK.A..GPLK..L...EH.VVSS..NS..HSSTFDAG.GIAL...
Retrocopy TTNVSVMNLTCCLEKPTRYDDIKKVVKQASDGPLKGILSVTEHHVVSSNFNSNTHSSTFDAGTGIALNDH

Parental  FVKLL
          FVKL.
Retrocopy FVKLI

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_461 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,