RetrogeneDB ID: retro_tsyr_910

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_237026:3856..4174(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAP1B
• Ensembl ID: ENSTSYG00000000192
• Aliases: None
• Description: RAP1B, member of RAS oncogene family [Source:HGNC Symbol;Acc:9857]

Sequence

>retro_tsyr_910
ATGCGTGAGTACAAGCTAGTCGTTTTTGGCTCAGGAGGGGTTGGAAAGTCTGCTCTGACTGTACAATTTGTCCAATGAAT
TTTTGTTGAGAAATATGATCCTACAAGAGAAGACTCGTATAGAAAGCAAGTTGAAGTAGATGGCCAACAGTGTATGCTTG
AAATCTTGGATACTGCGGGAACGGAGCAGTTCACAGCAATGAGGGATTTGTACATCAAAAACGGGCAAGGCTTCACTTTA
GTTTACTCTATCACAGCACAGTCCACATTTGATGACTTACAAGATCTGAGAGAATAGATTCTTCGTGTTAAAAAAACA

Alignment

ORF - retro_tsyr_910 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.57 %
• Parental protein coverage: 57.61 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MREYKLVVLGSGGVGKSAQTVQFVQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAGTEQFTAMRDL
          MREYKLVV.GSGGVGKSA.TVQFVQ.IFVEKYDPT.EDSYRKQVEVD.QQCMLEILDTAGTEQFTAMRDL
Retrocopy MREYKLVVFGSGGVGKSALTVQFVQ*IFVEKYDPTREDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDL

Parental  YMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT
          Y.KNGQGF.LVYSITAQSTF.DLQDLRE.ILRVK.T
Retrocopy YIKNGQGFTLVYSITAQSTFDDLQDLRE*ILRVKKT

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_910 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 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008637	1 retrocopy	retro_amel_103,
Cavia porcellus	ENSCPOG00000008272	4 retrocopies	retro_cpor_1194, retro_cpor_632, retro_cpor_739, retro_cpor_85,
Echinops telfairi	ENSETEG00000000242	1 retrocopy	retro_etel_11,
Gorilla gorilla	ENSGGOG00000025649	1 retrocopy	retro_ggor_2836,
Loxodonta africana	ENSLAFG00000016460	1 retrocopy	retro_lafr_482,
Otolemur garnettii	ENSOGAG00000005746	2 retrocopies	retro_ogar_2260, retro_ogar_272,
Pongo abelii	ENSPPYG00000004751	1 retrocopy	retro_pabe_3403,
Sus scrofa	ENSSSCG00000021148	1 retrocopy	retro_sscr_1125,
Sus scrofa	ENSSSCG00000030014	2 retrocopies	retro_sscr_435, retro_sscr_909,
Tarsius syrichta	ENSTSYG00000000192	1 retrocopy	retro_tsyr_910 ,
Tarsius syrichta	ENSTSYG00000004521	3 retrocopies	retro_tsyr_1546, retro_tsyr_1829, retro_tsyr_2140,