RetrogeneDB ID: retro_tsyr_436

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_117612:2547..3265(+)
• 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_436
TCACCCACCACCATCTTCCAAGAGCGAGATCCCACCAAAATAAAATGGGGCAATGCTGGTACTGATTATGCAGTGGAGTC
CATCAGTCTCTTCACTACCTTGGAGAAAGCTGGGGCTTACTTACATGAGGAGCCTAAAGGGTCATCGTCTCCACTTCCTC
AGCTGGCACCCCCATGTTGGTGATGGTTGTGAACCACAAGACGTACCAGAACAACGTCGTGATTGTCAACAATGCCGCCT
GCACCACCAACTGCTTAGCCTCTCTGGCCAAGGTCATCCACGACAACTTTGGCATCATGGAGGAACTCATGACCACTGTC
TACACCATCACAACTACCCAGAAGACCATAGATGGTCCCTCTGGGAAGCTGTGGCACAACAACCGCAGGGCCCTCCAGAA
CATCATCCCTGCATCCACCAGCAGTGCCAAGGCCATGAGCAAGGTCATCCCTGAGCTGAAAGGGAAGCTCACAGGCATGA
CCTTCTGTGTCCTCACCACCAGTGTGTCCATTGTGGACCTGACCTGTGGTCTGGAGCAACCCGCCAAATATGGTGATATT
AAAAAGGCAGTGAAGCAGGCATCTGAGGGCCCCCTCAAGGACATCCTGGGCTACACTAGCAACAGGTTGTGTCCTCTGAC
TTTAGCAGTGACACCCACTCTTCCACCTTTGATGCTGGAGCTGGCATTGCCTTCAGCAACAGCTTTGTCAAGCTCATC

Alignment

ORF - retro_tsyr_436 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.31 %
• Parental protein coverage: 81.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NPATIFQE-DPTEIKRSD---DNVVKSTGIFT--EKAVAHLQWSAK-RVIISAPSTDALRFVMGMNREKF
          .P.TIFQE.DPT.IK......D..V.S...FT..EKA.A.L....K.RVI.S..S......VM..N....
Retrocopy SPTTIFQERDPTKIKWGNAGTDYAVESISLFTTLEKAGAYLHEEPK<RVIVSTSSAGTPMLVMVVNHKTY

Parental  QNSLTNVSSTFCTTK--GPPAKAIHDHFGMVKGLMATVHTITATE-TVDGPSGKLWRDGR-AFQNIIPES
          QN....V....CTT......AK.IHD.FG....LM.TV.TIT.T..T.DGPSGKLW...R.A.QNIIP.S
Retrocopy QNNVVIVNNAACTTNCLASLAKVIHDNFGIMEELMTTVYTITTTQKTIDGPSGKLWHNNRRALQNIIPAS

Parental  PGAVKAVGKTVPELNEKLMGCAFCVPTATVPFVDLTCHLEKPAKYDDINKVVK-AAQGPLKVLLGCIEH-
          ....KA..K..PEL..KL.G..FCV.T..V..VDLTC.LE.PAKY.DI.K.VK.A..GPLK..LG.....
Retrocopy TSSAKAMSKVIPELKGKLTGMTFCVLTTSVSIVDLTCGLEQPAKYGDIKKAVKQASEGPLKDILGYTSN<

Parental  QVVSSD-NSDNHSSTFDAGAGIALKSCFVKLL
          QVVSSD..SD.HSSTFDAGAGIA....FVKL.
Retrocopy QVVSSDFSSDTHSSTFDAGAGIAFSNSFVKLI

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_436 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.

---

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,