RetrogeneDB ID: retro_tsyr_450

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_120111:265..873(-)
• 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_450
GTGTCTTCACTACTTTGGGAAAGCCTGGGGCTCACCATCTCTGTCCTCTCCGCCAACACCCCCATGTTTGTGATGGGTGT
AAGCCATGAGAAGTACCAGAACAACTTCACGTTTGTCAGCAATGCCTCCTGCAACACCAACTGCTTAGCTCCCCTGGCCA
AGGATATCCATGACAACTTTGGCATCATGGAGGGACTCATGGCCATCATTCATACTATCACTGCCACCCTGAAGACTGTG
GATGGCCCCTCTGGGAAGCTGTGGTGCAACAGCCATGGGGCCCTCCAGAACAACATCCCTGCATCCACCAGAGCTGTCAA
GGCCACGGGCAAGGTCATTCTCGAGCTGAACAGGAGGTTTACGGGCATGGCCTTCTGTATCCCCACTGCCAGTGTGTGTG
TTGTGGATCTGGCCTGGCATCTGGAGAAGCCTGCCAAATAGAATGACATTAAGAAGGTGCTGATCAGGCATCCGATAGCC
CCCTCAAAGGCATCCTGGGCTACACCAAGCACCAGGTTGTGCTCTCTGACTTTAACAGTACCACCCACTCTTCCACCTTT
GATGTTGGGGCTGGCATTGCCCTCTATGACCACTTTGTCAAGCTCATC

Alignment

ORF - retro_tsyr_450 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.9 %
• Parental protein coverage: 70.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VAHLQWSAKRVIISAPSTDALRFVMGMNREKFQNSLTNVSSTFCTTK--GPPAKAIHDHFGMVKGLMATV
          V..L.W......IS..S.....FVMG...EK.QN..T.VS...C.T....P.AK.IHD.FG...GLMA..
Retrocopy VSSLLWESLGLTISVLSANTPMFVMGVSHEKYQNNFTFVSNASCNTNCLAPLAKDIHDNFGIMEGLMAII

Parental  HTITAT-ETVDGPSGKLWRDGR-AFQNIIPESPGAVKAVGKTVPELNEKLMGCAFCVPTATVPFVDLTCH
          HTITAT..TVDGPSGKLW.....A.QN.IP.S..AVKA.GK...ELN....G.AFC.PTA.V..VDL..H
Retrocopy HTITATLKTVDGPSGKLWCNSHGALQNNIPASTRAVKATGKVILELNRRFTGMAFCIPTASVCVVDLAWH

Parental  LEKPAKYDDINKV-VKAAQGPLKV-LLGCIEHQVVSSD-NSDNHSSTFDAGAGIALKSCFVKLL
          LEKPAK..DI.KV.......P.K...LG...HQVV.SD.NS..HSSTFD.GAGIAL...FVKL.
Retrocopy LEKPAK*NDIKKVLIRHPIAPSKA<ILGYTKHQVVLSDFNSTTHSSTFDVGAGIALYDHFVKLI

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_450 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,