RetrogeneDB ID: retro_ogar_423

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:38604461..38604947(+)
• Located in intron of: ENSOGAG00000015958

Retrocopy information

• Ensembl ID: ENSOGAG00000024070
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: EXOSC8
• Ensembl ID: ENSOGAG00000002745
• Aliases: None
• Description: exosome component 8 [Source:HGNC Symbol;Acc:17035]

Sequence

>retro_ogar_423
ATGGCGGCTGGATTTAAAACCGGGAACCTCTGGATTATTACAGGAGATTTCTGAAAGAAAATTGCTGTCCTGATGGAAGG
GAACCTGGTGAATTCAGAACCACAACTGTCAACATAGGTTCAATTAGTACTGCAGATGGTTCTGCCTAGTGAAGCTGGGA
AATACTACAGTCATTTGTGGAGTTAAAGCGGAATTGGCAGCACCACCAACAGATGCCCCTGATAAAGGGTATGTTGTTCT
CAAGGTGGATCTACCACCCCGTGTTCATCAAGATTTCGGTCTGGACCTCCTGGAGAAGAGGCCCAAGTGGCTAGCCACTT
CATTGCAGATGTCATTGAAAATTCACAGATAATTCAGAAAGAAGATTTATACATTTCTCCAGGAAAGCTTGCTTGGGTCC
TATACTGTGAACTCATTTGCCTTGATTATGATGGAAACATTTTGGATGCTAGCACATTTGCTTTATTAGCAGCTTTAAAA
AATGTA

Alignment

ORF - retro_ogar_423 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.96 %
• Parental protein coverage: 59.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAAGFKTV-EPLEYYRRFLKENCRPDGRELGEFRTTTVNIGSISTADGSA-LVKLGNTTVICGVKAEFAA
          MAAGFKT..EPL.YYRRFLKENC.PDGRE.GEFRTTTVNIGSISTADGSA.LVKLGNTTVICGVKAE.AA
Retrocopy MAAGFKTG<EPLDYYRRFLKENCCPDGREPGEFRTTTVNIGSISTADGSA<LVKLGNTTVICGVKAELAA

Parental  PPTDAPDKGYVVPNVDLPPL-CSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLAWVLYC
          PPTDAPDKGYVV..VDLPP..CSSRFRSGPPGEEAQVAS.FIADVIENSQIIQKEDL.ISPGKLAWVLYC
Retrocopy PPTDAPDKGYVVLKVDLPPR<CSSRFRSGPPGEEAQVASHFIADVIENSQIIQKEDLYISPGKLAWVLYC

Parental  DLICLDYDGNILDACTFALLAALKNV
          .LICLDYDGNILDA.TFALLAALKNV
Retrocopy ELICLDYDGNILDASTFALLAALKNV

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_423 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.

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000120699	1 retrocopy	retro_hsap_3585,
Gorilla gorilla	ENSGGOG00000011902	1 retrocopy	retro_ggor_2418,
Nomascus leucogenys	ENSNLEG00000001745	1 retrocopy	retro_nleu_1684,
Otolemur garnettii	ENSOGAG00000002745	2 retrocopies	retro_ogar_1154, retro_ogar_423 ,
Pongo abelii	ENSPPYG00000005287	1 retrocopy	retro_pabe_2071,
Pan troglodytes	ENSPTRG00000005790	1 retrocopy	retro_ptro_2429,
Pteropus vampyrus	ENSPVAG00000014610	1 retrocopy	retro_pvam_275,
Tupaia belangeri	ENSTBEG00000012040	9 retrocopies	retro_tbel_1492, retro_tbel_1680, retro_tbel_2932, retro_tbel_349, retro_tbel_3712, retro_tbel_4030, retro_tbel_419, retro_tbel_4649, retro_tbel_527,