RetrogeneDB ID: retro_tsyr_1738

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_563557:352..770(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000006901
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1738
GAAGTGATTCAGTCTCTAGGGAGATCCAGTCCCGCTGAGGGACACGGAAAGGGTGGGGCGCCACCCAGGTGACAGGAGTC
TTTAAATAGAGGAGGAGCCTGGAGAGGGGAGATGGGACCATGCTCAAGCGCACCTTGCATTCTATGCGCTTATTGAGCTG
AACTTGGCAGAAGGAGAAGTCTCTGAGGAGGAGGTCAAGGCCGGTGGTGATGAAACGGTTGTAGCTGACTTGCTGGCAAA
GATGTTCTAGATGTTCTGGGGGCCATTCTCAAAATCTTTCTCGGTGAACGTCCTCAACTAACACAGCGGAATGGACATTG
AGAAATATTCCGAGCATTGTCAACCTAATCGCTCCCCAGGCACTGATGAGGGTGATGCCACAGGCAGCCAGCTTCCGCCC
ACAGCTCAGGAGCGACGC

Alignment

ORF - retro_tsyr_1738 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.71 %
• Parental protein coverage: 84.28 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EVIQS--REIQSRGTRKGWGATQ-VESLNRGGA-GEGRRDHALAHHVFFALIEPNLADREGSEEEVKAGG
          EVIQS..R.....G..KG.......ESLNRGGA.GEGR.DHA.AH..F.ALIE.NLA..E.SEEEVKAGG
Retrocopy EVIQSLGRSSPAEGHGKGGAPPR*QESLNRGGA>GEGRWDHAQAHLAFYALIELNLAEGEVSEEEVKAGG

Parental  DETVVADLLVNAVYVLGAILKIFLRGNVLN-HSGMDIEKYSKHYQHDHSPGA-EDDAAGGQLRPTAQERR
          DETVVADLL.................NVLN.HSGMDIEKYS.H.Q...SPG..E.DA.G.QL.PTAQERR
Retrocopy DETVVADLLAKMF*MFWGPFSKSFSVNVLN*HSGMDIEKYSEHCQPNRSPGTDEGDATGSQLPPTAQERR

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_1738 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015517	1 retrocopy	retro_dnov_1549,
Microcebus murinus	ENSMICG00000014057	1 retrocopy	retro_mmur_1371,
Tarsius syrichta	ENSTSYG00000006901	2 retrocopies	retro_tsyr_1105, retro_tsyr_1738 ,