RetrogeneDB ID: retro_tsyr_497

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_128275:2490..2862(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRBV25-1
• Ensembl ID: ENSTSYG00000013116
• Aliases: None
• Description: T cell receptor beta variable 25-1 [Source:HGNC Symbol;Acc:12205]

Sequence

>retro_tsyr_497
GGTGGCCTGCTTTTTCACTGTCTCTGTCCTTCTCTCACAGGCCTCATGGATACAAAAGTAACACAGACCCCAAGATATCT
GGTTAAAAGGATGGGAGAGAACGTTTTGCTGGAATGTTTACAGCATATGGACCATGAAAGAATGTACTGGTATCGACAAG
ACCCAGGTCTGGGGCTACGGCTGATCTATTTCTCATATAATGTTGACAGTAATGAGAAAGGAGATGTCCCTGAGGGGTAC
AGTGTCTCTAGGAAGAAGAAGGAAAATTTCTCCCTGATTCTGGAGTCTGCCAACACCAACCAGACATCTGTGTACCTGTG
CACCAGCAGTTTATCCGCAGCACTGCGCAGTCACATCCTCTCTGCACAAAAA

Alignment

ORF - retro_tsyr_497 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.59 %
• Parental protein coverage: 98.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSMLLCCVVFCILGVGTMDAGVTQTPRNRITKTGGNITLECSQTMGHIQMYWYRQDPGLGLQLIYYSLGV
          G..L..C...C....G.MD..VTQTPR......G.N..LEC.Q.M.H..MYWYRQDPGLGL.LIY.S..V
Retrocopy GGLLFHCL--CPSLTGLMDTKVTQTPRYLVKRMGENVLLECLQHMDHERMYWYRQDPGLGLRLIYFSYNV

Parental  NITEKGEFSYASTVSRIRKEHFPLILESASPSHTSQYLCASSDHTVLYEHLHFAQK
          ...EKG.......VSR..KE.F.LILESA....TS.YLC.SS....L..H...AQK
Retrocopy DSNEKGDVPEGYSVSRKKKENFSLILESANTNQTSVYLCTSSLSAALRSHILSAQK

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_497 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000013116	1 retrocopy	retro_tsyr_497 ,