RetrogeneDB ID: retro_tsyr_1472

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_45583:12037..12582(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000010052
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: IRF3
• Ensembl ID: ENSTSYG00000001716
• Aliases: None
• Description: interferon regulatory factor 3 [Source:HGNC Symbol;Acc:6118]

Sequence

>retro_tsyr_1472
AAAGAAGGGGCGCGTTTCGCAGTGGACCAGAGCAAGGACCCTCACGACCCACATAAGCTCCACGAGTTTGTGACCCCAGG
ATTTGGGGGCTTTTCCCAGTGGGACCCCTCTCCCGAAACCAGTGGCCGAGGCAGTACCTCTGAGATCCAGGAAGACGTTC
TGGATGGGTTACTGGGTAACATGGCCTTGGCCCCACTCCCAGATGGGCCCTCGGGCCTGACTGTGGCCGCTGAGCCCTGC
CCTCCGCCCTGGCTGCGCCCCGAGGCAGACCATCCCGCTCCCTGCCCAAACCTGGAGGCCCCCGAAAATCCACGGAGGCA
GCTGTGGGTGCCAGAGGAAGAGGGGGAGTTTGAGGTGACGGCCTCCTACCGGGGCCGCCAAGTCCTCCAGCAGACCGTCT
CATGCCCAGGGCGCCTGCGGCTGGGAGGGCCCGAAGTAGGGGCCACGACGCTGCTGGGTGGCCAATAGCACTGCCAGACC
CTGGGGTGCCCCGGACAGACGGGGAAGTGACTGGCGACGTGAGGCGCGTGCTGCGCTGCCTGGGC

Alignment

ORF - retro_tsyr_1472 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.13 %
• Parental protein coverage: 64.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KEGVRITKKQNKEPQDPHKIYEFVTPGFGDFSQWDTSPETSGRGSTSDIQEDILDELLGNMALAPLPDGP
          KEG.R....Q.K.P.DPHK..EFVTPGFG.FSQWD.SPETSGRGSTS.IQED.LD.LLGNMALAPLPDGP
Retrocopy KEGARFAVDQSKDPHDPHKLHEFVTPGFGGFSQWDPSPETSGRGSTSEIQEDVLDGLLGNMALAPLPDGP

Parental  SGLTVAPEPCPQLLLSPRSDNPVPCSNLGAPENPLRQLLVPEEAWEFEVTAFYRGRQVFQQTISRPGVLR
          SGLTVA.EPCP...L.P..D.P.PC.NL.APENP.RQL.VPEE..EFEVTA.YRGRQV.QQT.S.PG.LR
Retrocopy SGLTVAAEPCPPPWLRPEADHPAPCPNLEAPENPRRQLWVPEEEGEFEVTASYRGRQVLQQTVSCPGRLR

Parental  LVGPEVWDKTL-PAWPITLPDPGVSLTDRGVMGYV-RVLHCLG
          L.GPEV...TL...WPI.LPDPGV..TD..V.G.V.RVL.CLG
Retrocopy LGGPEVGATTL<AGWPIALPDPGVPRTDGEVTGDVRRVLRCLG

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_1472 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000001716	1 retrocopy	retro_tsyr_1472 ,