RetrogeneDB ID: retro_tsyr_1300

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_386426:542..877(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000008789
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000002278
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1300
ATGGCGGCCGCCTTGGCTCGGCTTGGGCTCCGATCTGTCAAGCAGGTTCGGGTTCGGTTCTGCCCCTTGGAGAAGGACGT
GGCATCGACAAGGACTTTCCTCCAGGCGGTGAGCAGCGAGAAAGTCCGCTCCACCCATCTCAACTGCTCGGTGACGGCGG
ACGTGAGGCACGACGGTTCGGCGCCCTGCGTGGATGTGCTACTCGGAGATGGGCATCGCCTGGTCACGCGTGGGGCCCAC
CTCACCGCTTTGGAGATGCTCACTGCCTTCACCTCCCACTCCGGGCCAGGGACGGAGCGAGCAGCGGGGACGAGCCAGGC
GCCGCTACTGGGCGC

Alignment

ORF - retro_tsyr_1300 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.73 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAALARLGLRSVKQVRVQFCPFEKNVESTRTFLQAVSSEKVRSTNLNCSVIADVRHDGSEPCVDVLFGD
          MAAALARLGLRSVKQVRV.FCP.EK.V.STRTFLQAVSSEKVRST.LNCSV.ADVRHDGS.PCVDVL.GD
Retrocopy MAAALARLGLRSVKQVRVRFCPLEKDVASTRTFLQAVSSEKVRSTHLNCSVTADVRHDGSAPCVDVLLGD

Parental  GHRLIMRGAHLTALEMLTAFTSH-IKARDGASSGDKPGAATRR
          GHRL..RGAHLTALEMLTAFTSH...ARDGASSGD.PGAAT.R
Retrocopy GHRLVTRGAHLTALEMLTAFTSH<LRARDGASSGDEPGAATGR

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_1300 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000016599	3 retrocopies	retro_btau_1132, retro_btau_1528, retro_btau_799,
Nomascus leucogenys	ENSNLEG00000000672	1 retrocopy	retro_nleu_44,
Oryctolagus cuniculus	ENSOCUG00000015342	1 retrocopy	retro_ocun_372,
Pan troglodytes	ENSPTRG00000033835	1 retrocopy	retro_ptro_90,
Tarsius syrichta	ENSTSYG00000002278	2 retrocopies	retro_tsyr_1300 , retro_tsyr_1840,