RetrogeneDB ID: retro_tsyr_499

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_129229:971..1336(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNRNP25
• Ensembl ID: ENSTSYG00000000091
• Aliases: None
• Description: small nuclear ribonucleoprotein 25kDa (U11/U12) [Source:HGNC Symbol;Acc:14161]

Sequence

>retro_tsyr_499
CGGCTGCTGCAGGAAACCCTGGAGGAGACGGAGGCAGTGAGTAGGTCAAGGCCCAGGAGGACGATGAGGACGGGGAAGAG
GCGCTGCCGCACTCCAAAGCGGTGGACGCATTCCAGGAGGGTCTCGCCATGGTGGTGCAGGACCTGCTGCTCTGCGATCT
ACCCATCCAGGTTACTTTGGAAGAGGTCAATTCCCCAATAGCATTGGAGTATGACCAAGCAATGACAGTTTGAGTGTGCA
AGATCGATGGAGAAGTCATGCCTGTGGTTGTAGTACAGAACGCCACAGTCCTGGACCTGAAGAAGGCCATGCAGAGATAC
GTGCAGCTCGAGCAAGAGTGTGAAAGGGGCATTCAGCACATCAGC

Alignment

ORF - retro_tsyr_499 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.67 %
• Parental protein coverage: 55.76 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RLLPAALEAAEAVSRS-EAQEDDEDEEEALPHSEAVDVFQEGLAMVVQDPMLCDLPIQXXXEEVNSQI-I
          RLL...LE..EAVSRS..AQEDDED.EEALPHS.AVD.FQEGLAMVVQD..LCDLPIQ...EEVNS.I..
Retrocopy RLLQETLEETEAVSRS<KAQEDDEDGEEALPHSKAVDAFQEGLAMVVQDLLLCDLPIQVTLEEVNSPIAL

Parental  EYGQAMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGIQHIS
          EY.QAMTV.VCK.DGEVMPVVVVQNATVLDLKKA.QRYVQL.QE.E.GIQHIS
Retrocopy EYDQAMTV*VCKIDGEVMPVVVVQNATVLDLKKAMQRYVQLEQECERGIQHIS

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_499 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000002527	1 retrocopy	retro_ogar_2782,
Tarsius syrichta	ENSTSYG00000000091	2 retrocopies	retro_tsyr_1686, retro_tsyr_499 ,