RetrogeneDB ID: retro_tsyr_2068

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_86296:3952..4337(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAC1
• Ensembl ID: ENSTSYG00000001618
• Aliases: None
• Description: ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) [Source:HGNC Symbol;Acc:9801]

Sequence

>retro_tsyr_2068
GAAAAACTGGTGACTCTGAGCTTATGGGATACAGTTGGACAAGAAGATTATGACAGATTTCGCCCCTCCCTGTCCCATCC
ACAACCAGATGTATTCTTAATTTGTTTTTCCCTTTTGAGTCCTGCGTTATTTGAAAATGTTCGTACAAAGTGATATCCTG
AAGTGTGGCACCGTGATCCCAACTCTCTCATCATCCTTGTGAGAACTAAACTTGATCTTAGGGATGATGAAGACCCAATT
AAGAAACTGAAGGAGAAGATGCTGACCCCCATTACCTATCTGCAGAATTTAGCCATGGCTAAGGAGATCAGTGCTGTAAA
ATACCTGGAGTGCTCAGCTCTCACACAGGAGGCCTCAAGACAGTGTTTGAGAAGCTATCAGGGCA

Alignment

ORF - retro_tsyr_2068 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.42 %
• Parental protein coverage: 65.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DRLRPLSYPQTVG-ETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVG
          ..L..LS...TVG.E.Y.....S.....P..DVFLICFSL.SPA.FENVR.K.YPEV.H..PN..IILV.
Retrocopy EKLVTLSLWDTVGQEDYDRFRPSLSHPQP--DVFLICFSLLSPALFENVRTK*YPEVWHRDPNSLIILVR

Parental  TKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQR-GLKTVFD-EAIRA
          TKLDLRDD.D.I.KLKEK.LTPITY.Q.LAMAKEI.AVKYLECSALTQ..GLKTVF..EAIRA
Retrocopy TKLDLRDDEDPIKKLKEKMLTPITYLQNLAMAKEISAVKYLECSALTQE<GLKTVFE<EAIRA

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_2068 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 11 parental genes, and 35 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000136238	6 retrocopies	retro_hsap_1256, retro_hsap_1925, retro_hsap_28, retro_hsap_3036, retro_hsap_3072, retro_hsap_4910,
Gorilla gorilla	ENSGGOG00000026733	2 retrocopies	retro_ggor_2110, retro_ggor_217,
Mus musculus	ENSMUSG00000001847	2 retrocopies	retro_mmus_1372, retro_mmus_234,
Pan troglodytes	ENSPTRG00000018910	4 retrocopies	retro_ptro_1288, retro_ptro_3044, retro_ptro_3274, retro_ptro_36,
Rattus norvegicus	ENSRNOG00000001068	1 retrocopy	retro_rnor_230,
Ictidomys tridecemlineatus	ENSSTOG00000006784	1 retrocopy	retro_itri_1503,
Tupaia belangeri	ENSTBEG00000007272	4 retrocopies	retro_tbel_1796, retro_tbel_2564, retro_tbel_4296, retro_tbel_9,
Tarsius syrichta	ENSTSYG00000000679	11 retrocopies	retro_tsyr_1575, retro_tsyr_1597, retro_tsyr_1854, retro_tsyr_1976, retro_tsyr_2048, retro_tsyr_2098, retro_tsyr_352, retro_tsyr_387, retro_tsyr_539, retro_tsyr_66, retro_tsyr_963,
Tarsius syrichta	ENSTSYG00000001618	2 retrocopies	retro_tsyr_2027, retro_tsyr_2068 ,
Tarsius syrichta	ENSTSYG00000002837	1 retrocopy	retro_tsyr_1609,
Xenopus tropicalis	ENSXETG00000027593	1 retrocopy	retro_xtro_1,