RetrogeneDB ID: retro_ogar_2782

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873663.1:4039063..4039540(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028218
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: B4USJ8_OTOGA
• Ensembl ID: ENSOGAG00000002527
• Aliases: None
• Description: U11/U12 small nuclear ribonucleoprotein protein (Predicted) [Source:UniProtKB/TrEMBL;Acc:B4USJ8]

Sequence

>retro_ogar_2782
GAGGTAGCGGAAGATACCGGTCAGCCTGAGACGCCGGAGAACGATGATGACGAAGAGGTGGTGTTGCCGCACTCTGAAGC
TGTGGACGTGTTCCAGGAGGGTCTCGCGATGGTGGTGCAGGACCCGCTACTCTGCGATCTACCGATCCAAGTTACTTTGG
AAGAGGTCAATTCCCAAATAGCACTAGAATATGGCCAAGCAATGACAGTCCGAGTATGCAAGATGGATGGAGAAGTGATG
CCTGTGGTTGTAGTGCAGAATGCCACGGTCCTGGACCTGAAGAAGGCCATCCAGAGATATGTGCAGCTCAAGCAGGAGCG
GGAAGGGGGCGTTCAGCACATCAGCTGGTCTTATGTGTGGCGGACATACCATCTGACCTCTGCAGGAGAGATGCTCACAG
AAGACCGGAAGAAGCTCCGAGATTATGGTATCCGGAATCGGGCTGAGGTTTCCTTCATCAAAAAGCTGAGGCAAAAG

Alignment

ORF - retro_ogar_2782 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.23 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EVAEDTRQPETPENDEDEEEALPHSEAVDVFQEGLAMVVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTV
          EVAEDT.QPETPEND.DEE..LPHSEAVDVFQEGLAMVVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTV
Retrocopy EVAEDTGQPETPENDDDEEVVLPHSEAVDVFQEGLAMVVQDPLLCDLPIQVTLEEVNSQIALEYGQAMTV

Parental  RVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLR
          RVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGE.LTEDRKKLR
Retrocopy RVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEMLTEDRKKLR

Parental  DYGIRNRDEVSFIKKLRQK
          DYGIRNR.EVSFIKKLRQK
Retrocopy DYGIRNRAEVSFIKKLRQK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_2782 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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,