RetrogeneDB ID: retro_tsyr_1263

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_369405:1..412(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000012192
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000001184
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1263
GATGATGGCGGGGTCAAAGTGGTGAAAGTCACATTTAATGAACAGGACGCCGTTATAATCCTCACCATGACGGGCCACTC
TGAAGATCAGGAACTCCAACTTCTACCCCGTGACAGTGACCAGCCTGTCCAGCCAGTTTCAGTACATGAACACAGTGATT
GGCACATATGTGGCAACTAACGTCTCCCTCATTCCACCTCGGAGTGAGCAACTGGTGAATTTTACTGGGAAGGCCGAGAT
GGGAAGACCATTTTCCTATGTGTACTTCTTCTGCACGTTACCTGACATCCTGGTACACAACATAGTGATCTTCATGCGTA
CATCGGTGAAGATTTCATACATTGGCACATGACCCAGAGCTCCTTGGAAACACATCACTATGTGGATTGTGGAGGAAATT
CCACAGCTGTT

Alignment

ORF - retro_tsyr_1263 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.84 %
• Parental protein coverage: 54.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DDGGVKVVKVTFNEQDALIILTMT-ATLKIRNSNFYPVTVTSLSSQFQYMNTVIGTYVATNVSLIPPRSE
          DDGGVKVVKVTFNEQDA.IILTMT.ATLKIRNSNFYPVTVTSLSSQFQYMNTVIGTYVATNVSLIPPRSE
Retrocopy DDGGVKVVKVTFNEQDAVIILTMT>ATLKIRNSNFYPVTVTSLSSQFQYMNTVIGTYVATNVSLIPPRSE

Parental  QLVNFTGKAEMGRPFSYVYFFCTLPDILVHNIVIFMRTSVKISYIG-HMTQSSLETHHYVDCGGNSTAV
          QLVNFTGKAEMGRPFSYVYFFCTLPDILVHNIVIFMRTSVKISYIG.HMTQSSLETHHYVDCGGNSTAV
Retrocopy QLVNFTGKAEMGRPFSYVYFFCTLPDILVHNIVIFMRTSVKISYIG<HMTQSSLETHHYVDCGGNSTAV

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_1263 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000008335	1 retrocopy	retro_cpor_1124,
Equus caballus	ENSECAG00000020351	1 retrocopy	retro_ecab_660,
Echinops telfairi	ENSETEG00000010370	1 retrocopy	retro_etel_173,
Myotis lucifugus	ENSMLUG00000017734	1 retrocopy	retro_mluc_1096,
Pteropus vampyrus	ENSPVAG00000014352	1 retrocopy	retro_pvam_562,
Sus scrofa	ENSSSCG00000028397	1 retrocopy	retro_sscr_473,
Tarsius syrichta	ENSTSYG00000001184	1 retrocopy	retro_tsyr_1263 ,