RetrogeneDB ID: retro_ogar_2194

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873600.1:5092651..5093029(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000032666
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: UBE2K
• Ensembl ID: ENSOGAG00000008264
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2K [Source:HGNC Symbol;Acc:4914]

Sequence

>retro_ogar_2194
GAATTTAGAGGAGGACTAGCAGGACCTCCAGACACTCCATATGATGAAGGAGGATACCAACTAGAGATAAAAATACCTGA
GATATATCCATTTAATCCTCCTAAGGTCCGGTTTATCATTAAAATATGGCATCCTAATATTAGTTCTGTCACAGGGGCTA
TGTGTTTGGATAGCCTGAAAGATCAATGGGCAGCAGCAATGACTCTCTGCACGGTGTCATTGTCATTGCAAGCACCGTTG
GCAGCTGCAGAACCAGATGATCTACAAGATGCAGTGGTAGCAAATCAGTACAAACAAAATTCTGAAATGTTCAAGCGGAC
AGCTCGACTTTGGGCACAAGTGTCTGCTGGAGCACCAGTTTCTAGTCCAGAATACACC

Alignment

ORF - retro_ogar_2194 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.71 %
• Parental protein coverage: 63.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELRGEIAGPPDTPYEGGRYQLEIKIPETYPFNPPKVRFITKIWHPNISSVTGAICLDILKDQWAAAMTLR
          E.RG..AGPPDTPY..G.YQLEIKIPE.YPFNPPKVRFI.KIWHPNISSVTGA.CLD.LKDQWAAAMTL.
Retrocopy EFRGGLAGPPDTPYDEGGYQLEIKIPEIYPFNPPKVRFIIKIWHPNISSVTGAMCLDSLKDQWAAAMTLC

Parental  TVLLSLQALLAAAEPDDPQDAVVANQYKQNPEMFKQTARLWAHVYAGAPVSSPEYT
          TV.LSLQA.LAAAEPDD.QDAVVANQYKQN.EMFK.TARLWA.V.AGAPVSSPEYT
Retrocopy TVSLSLQAPLAAAEPDDLQDAVVANQYKQNSEMFKRTARLWAQVSAGAPVSSPEYT

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_2194 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001252	1 retrocopy	retro_chof_2683,
Otolemur garnettii	ENSOGAG00000008264	1 retrocopy	retro_ogar_2194 ,
Sorex araneus	ENSSARG00000013725	1 retrocopy	retro_sara_739,
Tursiops truncatus	ENSTTRG00000003174	1 retrocopy	retro_ttru_538,