RetrogeneDB ID: retro_tsyr_524

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_133008:2496..2765(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000007733
• Aliases: None
• Description: None

Sequence

>retro_tsyr_524
ATGTCAGCAGGTGCACCTGCAGGGTCTGCTGCAATGGCAGTAATCGAAGACTTCAGCAGACACAGAATCAAGTCGATGAG
GTGGTGAACATAATGAGAGTTAACATGGATAAAGTGTTAGAAAGAGACCAGAAGCTCTCCGAGTTGGACGACCATGCCGA
TGCCCTGCAGGCAGGAGCTTCCCAATTTGAAACAAGTGCTGCCAAATTGAAGAGAAAACATTAGTGGAAGAATTGCAAAA
TGTGGCCAATAGGGATTACCGTTCTGGTT

Alignment

ORF - retro_tsyr_524 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.11 %
• Parental protein coverage: 92.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSAGAPAGSAA-TGSNRRLQQTQNQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAK
          MSAGAPAGSAA..GSNRRLQQTQNQVDEVV.IMRVN.DKVLERDQKLSELDD.ADALQAGASQFETSAAK
Retrocopy MSAGAPAGSAA<NGSNRRLQQTQNQVDEVVNIMRVNMDKVLERDQKLSELDDHADALQAGASQFETSAAK

Parental  LKRKYWWKNCKMWAIGVTVLV
          LKRK..WKNCKMW.IG.TVLV
Retrocopy LKRKH*WKNCKMWPIGITVLV

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_524 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000000277	2 retrocopies	retro_lafr_1094, retro_lafr_463,
Monodelphis domestica	ENSMODG00000005770	1 retrocopy	retro_mdom_273,
Mus musculus	ENSMUSG00000028955	1 retrocopy	retro_mmus_1851,
Otolemur garnettii	ENSOGAG00000009797	1 retrocopy	retro_ogar_2300,
Procavia capensis	ENSPCAG00000004825	1 retrocopy	retro_pcap_389,
Tarsius syrichta	ENSTSYG00000007733	6 retrocopies	retro_tsyr_1027, retro_tsyr_1435, retro_tsyr_1634, retro_tsyr_1757, retro_tsyr_524 , retro_tsyr_968,