RetrogeneDB ID: retro_tsyr_936

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_247084:374..912(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000010967
• Aliases: None
• Description: None

Sequence

>retro_tsyr_936
TTCCGGTGTTATGAGTCTGTAGAGACATTTGTGTATAACATTCTTGCCTGAATTCTGGTGTCCGCCTTGGATCATTGGGC
CTGATTTTTTTCCTTGACTCTACACAGGCATAAGTGTCCCCTTAATCTGTACCTGCTTTTTGGATTTACACTGATGAAAA
CCCTGACTGTGGCCTTTGCAGTTACTTTCTATGATATACGGATTATTCCACAAGATTTTATACTGACGAACTACAATATT
TCTTGGCTTGACTGCATACACTCTACAAGCCAAGAGAGATTTCAACAAATTTGGGAGCAGGGCTGTTTGCTGTTTTCTGG
ATCTTGTGGTTGTCAGGATTCTTGAGATTGGTCTTTTATAGCAAGACAGTGGAGGTGGTCTTTGCTGCCATGGGAGTCCT
TCTGTTCTGTGGTTTCATCATCTATGACACATACTCACTGATGCACATACTGTCACCTGAAGAGTAGATGTTAGCTGCCA
TCAACCGCTACCTGGATATCATCAACCTCTTCTATACTTGTTGCAACTTTTGGAAGCT

Alignment

ORF - retro_tsyr_936 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.35 %
• Parental protein coverage: 87.25 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  FLYFESVRTFVHNSPAVILVSAF-GSLGLIF-ALTLHRHKYPLNLYLLFGFTLMEALTV-FVVTFYDIRI
          F...ESV.TFV.N..A.ILVSA..GSLGLIF..LTLHRHK.PLNLYLLFGFTLM..LTV.F.VTFYDIRI
Retrocopy FRCYESVETFVYNILA*ILVSAL<GSLGLIF>SLTLHRHKCPLNLYLLFGFTLMKTLTVAFAVTFYDIRI

Parental  ILQAFILT-TTVFLALTAYTLQSKRDFSKFG-AGLFAAFWILWLSGFLRLFFYSETVEVVFAAIGALLFC
          I.Q.FILT.TT.FL.LTAYTLQ.KRDF.KFG.AGLFA.FWILWLSGFLRL.FYS.TVEVVFAA.G.LLFC
Retrocopy IPQDFILT>TTIFLGLTAYTLQAKRDFNKFG>AGLFAVFWILWLSGFLRLVFYSKTVEVVFAAMGVLLFC

Parental  GFIIYDTHSLMHRLSPEEYVLAAINLYLDIINLF-LHLLRLLEA
          GFIIYDT.SLMH.LSPEE..LAAIN.YLDIINLF.L.LL.LLEA
Retrocopy GFIIYDTYSLMHILSPEE*MLAAINRYLDIINLF<LYLLQLLEA

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_936 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000026993	1 retrocopy	retro_btau_1193,
Callithrix jacchus	ENSCJAG00000014558	1 retrocopy	retro_cjac_521,
Cavia porcellus	ENSCPOG00000007728	1 retrocopy	retro_cpor_441,
Tarsius syrichta	ENSTSYG00000010967	3 retrocopies	retro_tsyr_1322, retro_tsyr_1408, retro_tsyr_936 ,