RetrogeneDB ID: retro_tsyr_1995

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_76268:7639..8229(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: WDR73
• Ensembl ID: ENSTSYG00000006739
• Aliases: None
• Description: WD repeat domain 73 [Source:HGNC Symbol;Acc:25928]

Sequence

>retro_tsyr_1995
ATGGAGTCCAAGGAGGACTGGCTGGTGGAATTCTTGTGCTTGTACCAGGATTTCTATGCATTCGAGCTCTCAGGAGCCAC
TTGAGTCCTTGAATGGACTGATGACAAAGGAGTCTTTGTTGCTGGTTATGAAGGCCTGAAAAAAATGAGATTCTTCATCT
GATATTACCTCTCAAACTTTGTGTAAATAAAACCAGGGTTTATTCCCAGAAAGATATTTCAGTGAGCCATGGAAGATTTT
CAGGTAGGCCTGTCTTGGATCTAAGCCATGTGCCAAATACCAGATGACTGGTGACCAGTGGCCTTCCAGGTTGTTATCTG
CAGGTATGGCAGGTTGCAGAGGACAGTGATATCATTAAAGCTGTCAGCACCATTCCTGTGCATGAGAAAGAGGGGACTCT
CTGTCCTAGGGTAGCCATCTTTTCCTCAGTGGCACCCGGAGTCCTCCACAGGGTGAGACTCAGCAGCCTGAAGATTGTGA
ATCTGGAGTCCCTGAAGACTGCATACATCTCAAGTGTCAGTGACAGTGAGGAGCTGAGTAGCCTGCAGGTCCTAGATGCA
GACATCTTTGCCTTCTGCTGCACCTCAGGC

Alignment

ORF - retro_tsyr_1995 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.89 %
• Parental protein coverage: 63.96 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MESEEDWLVESLRLYQDFYAFDLSGATRVLEWIDDKGVFVAGYEGRKK-NEIL-LILPLRLYVNENQGLF
          MES.EDWLVE.L.LYQDFYAF.LSGAT.VLEW.DDKGVFVAGYEG.KK.NEIL.LILPL.L.VN......
Retrocopy MESKEDWLVEFLCLYQDFYAFELSGAT*VLEWTDDKGVFVAGYEGLKK<NEILHLILPLKLCVNKTR-VY

Parental  PERDFKVHHGGFSDRPVFDLKHVPSTRLLVTSGLPGCYLQVWQVAEDNDVIKAVSTVPVHEKEGTLWPRV
          ...D..V.HG.FS.RPV.DL.HVP.TR.LVTSGLPGCYLQVWQVAED.D.IKAVST.PVHEKEGTL.PRV
Retrocopy SQKDISVSHGRFSGRPVLDLSHVPNTR*LVTSGLPGCYLQVWQVAEDSDIIKAVSTIPVHEKEGTLCPRV

Parental  AIFSSVAPRVLHGVRLSSLEIVDLESLKTAYTSGVSDNEELSSLQVLDADTFAFCCPSG
          AIFSSVAP.VLH.VRLSSL.IV.LESLKTAY.S.VSD.EELSSLQVLDAD.FAFCC.SG
Retrocopy AIFSSVAPGVLHRVRLSSLKIVNLESLKTAYISSVSDSEELSSLQVLDADIFAFCCTSG

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_1995 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000010104	1 retrocopy	retro_lafr_489,
Tarsius syrichta	ENSTSYG00000006739	1 retrocopy	retro_tsyr_1995 ,