RetrogeneDB ID: retro_tsyr_770

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_19552:2099..2934(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GRSF1
• Ensembl ID: ENSTSYG00000008487
• Aliases: None
• Description: G-rich RNA sequence binding factor 1 [Source:HGNC Symbol;Acc:4610]

Sequence

>retro_tsyr_770
AAGTTAGGAGAAATAGATGATGTTTATCTCATTCGAGCTCAAGGATTGCCCTGGTCGTGCAGTGTAGAAGATGTGCTTCA
GTTTTTCTCAGACTGCAGCATCCGCAGTGGTGAGAATGGAATACATTTCCTCTTAGAGATGGGAAACCAAGGCGTGATGC
CTTGATTGAAATGGAGTCAGAGCAAGATGTGCAGAAAGCATTAGAGAAGCACCGCATGTACATGAGTCAGCGCTATGTGG
AAGTATATGAGATAAACAATGACGATGTAGATGCCTTAATGAACAGCTTGCAGGTCAAATCTTTGCCTGTAGTAAATGAT
GGCGTGGTTCATTTATGAGGACTTTCGTATTGTTGCAATGAAAAAGACTTTGTAGACTTCTTTGCAGGACTGACTATAGT
TGACATTACTTTTGTGACGGACTACACAGAGAGAAGAAAAACTAGGAAATCCTATGTGCAATTTGAAGAACCAGAAATAG
CCAACCAAGCCCTATTGAAACACAGGGAAGAAATTGGTAACTGATATATTGACATATTTCCAAGCAGAAGGAATGAAGTC
CGAACACAAGTTGGCTCTCATAAGGGAAAGAAAATGGCGTCTTCTCCCACTGCTAAGTATATAACTGAACCAGAAATGGT
CTTTGAAGAACATAAAGTAAATGAGGATATTCAACCCATGATGGCTTTTGAAAGTGAGACAGAAATAAAATTGCCTAAGG
AGGTGTCAGAGAAGTGTCCAGAGGCTGTGAATTTTGGAACTACACCTTCTCTGCATTTCATCCACATTGAGGATTGCCCT
TCCAAGCCATTGCTCAAGACATTATAAACTTTTTT

Alignment

ORF - retro_tsyr_770 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.33 %
• Parental protein coverage: 87.27 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KLGEEVDDVYLIRAQGLPWSCTIEDVLNFFSDCRIRNGENGIHFLLNRDGK-RRGDALIEMESEQDVQKA
          KLGE..DDVYLIRAQGLPWSC..EDVL.FFSDC.IR.GENGIHFLL......RR.DALIEMESEQDVQKA
Retrocopy KLGE-IDDVYLIRAQGLPWSCSVEDVLQFFSDCSIRSGENGIHFLLEMGNQ<RR-DALIEMESEQDVQKA

Parental  LEKHRMYMGQRYVEVYEINNEDVDALMKSLQVKSSPVVNDGVVRLRGLPYSCNEKDIVDFFAXXXXXDIT
          LEKHRMYM.QRYVEVYEINN.DVDALM.SLQVKS.PVVNDGVV.L.GL.Y.CNEKD.VDFFA.....DIT
Retrocopy LEKHRMYMSQRYVEVYEINNDDVDALMNSLQVKSLPVVNDGVVHL*GLSYCCNEKDFVDFFAGLTIVDIT

Parental  FVMDYRGRRKTGEAYVQFEEPEMANQALLKHREEIGNRYIEIFPSRRNEVRTHVGSHKGKKMASSPTAKY
          FV.DY..RRKT...YVQFEEPE.ANQALLKHREEIGN.YI.IFPSRRNEVRT.VGSHKGKKMASSPTAKY
Retrocopy FVTDYTERRKTRKSYVQFEEPEIANQALLKHREEIGN*YIDIFPSRRNEVRTQVGSHKGKKMASSPTAKY

Parental  ITEPEMVFEEHEVNEDIRPMTAFESEKEIELPKEVSEKLPEAVDFGTTPSLHFVHMR-GLPFQANAQDII
          ITEPEMVFEEH.VNEDI.PM.AFESE.EI.LPKEVSEK.PEAV.FGTTPSLHF.H...GLPFQA.AQDII
Retrocopy ITEPEMVFEEHKVNEDIQPMMAFESETEIKLPKEVSEKCPEAVNFGTTPSLHFIHIE<GLPFQAIAQDII

Parental  NFF
          NFF
Retrocopy NFF

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_770 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
Nomascus leucogenys	ENSNLEG00000007721	1 retrocopy	retro_nleu_1973,
Ictidomys tridecemlineatus	ENSSTOG00000011569	2 retrocopies	retro_itri_1828, retro_itri_523,
Tupaia belangeri	ENSTBEG00000010173	2 retrocopies	retro_tbel_3827, retro_tbel_987,
Tarsius syrichta	ENSTSYG00000008487	1 retrocopy	retro_tsyr_770 ,