RetrogeneDB ID: retro_ogar_1111

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873536.1:9124643..9125310(+)
• Located in intron of: ENSOGAG00000008961

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000000645
• Aliases: None
• Description: None

Sequence

>retro_ogar_1111
CGCTCTGGGGACCTTTTTAACTGTGGCAGCCTCACCATCCTTTCCCCATGGGGCTGTGTTGGCCACGGGGCTCTCTACCA
TTCTCAAGAGTCCAGAAGTGTTTTTTGCCTATTGCCTGGGAATCAAGGTGGTTATGCCCAGAAGCCCTTGCCAGGCCAAG
GGACTTCTTTTGTAATGCACAGAGGATAAAAATCCTTGTATATTTTTTGAACCTAAATACTTTACAGGGCAGCAGTGAAA
GAGGTCCCAGTAGAATCGTACACCATCCCACTGTCCCAGGCACAAGTCACACAGGAAGGGAGTGATGTCATCCTAGTTGC
CTGGGGCACACAGGTTCATGTGATCCAGGAGGTAGCTTCCATGGCAAAAGAAAAGCTCAGAGTGTCTTGTGAGTCACTGA
CCTGAGGACCATAATACCTTGGGATGTGGACACTGTTTTTAAGTCCGTGATCAAAACAGGACATCTGCTCATTAGTCACA
AGGCTCCTTTGACAGGAGGCTTTGCCTCAGAGATTAGCTCCACAGTTCAGGAAGAATGCTTCTTGACCTAGAGGCTCCTA
TATCAAGGGTATGTGGATTTGACACACCATTTCCTCACATTTTTGAGCCATTCTACATCCCTGACAAGTGGAAGTGCTAT
GATGCCCTTCAAAAAACGATCAACTAT

Alignment

ORF - retro_ogar_1111 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.67 %
• Parental protein coverage: 68.2 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RSGDLFNCGSLTIRSPWGCVGHGALYHSQ-SPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFF
          RSGDLFNCGSLTI.SPWGCVGHGALYHSQ.SPE.FFA.C.GIKVV.PRSP.QAKGLLL.C.EDKNPCIFF
Retrocopy RSGDLFNCGSLTILSPWGCVGHGALYHSQ>SPEVFFAYCLGIKVVMPRSPCQAKGLLL*CTEDKNPCIFF

Parental  EPK-ILYRAAVEQVPVEPYTIPLSQAEVIQEGSDVTLVAWGTQVHVIREVASMAKEKLGVSCE-VIDLRT
          EPK.ILYRAAV..VPVE.YTIPLSQA.V.QEGSDV.LVAWGTQVHVI.EVASMAKEKL.VSCE.V.DLRT
Retrocopy EPK<ILYRAAVKEVPVESYTIPLSQAQVTQEGSDVILVAWGTQVHVIQEVASMAKEKLRVSCE<VTDLRT

Parental  IIPWDVDTVCKSVIKTGRLLISHEAPLTGGFASEISSTVQEECF-LNLEAPISRVCGYDTPFPHIFEPFY
          IIPWDVDTV.KSVIKTG.LLISH.APLTGGFASEISSTVQEECF.L.LEAPISRVCG.DTPFPHIFEPFY
Retrocopy IIPWDVDTVFKSVIKTGHLLISHKAPLTGGFASEISSTVQEECF<LDLEAPISRVCGFDTPFPHIFEPFY

Parental  IPDKWKCYDALRKMINY
          IPDKWKCYDAL.K.INY
Retrocopy IPDKWKCYDALQKTINY

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_1111 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000000645	1 retrocopy	retro_ogar_1111 ,
Sus scrofa	ENSSSCG00000004465	1 retrocopy	retro_sscr_653,
Tarsius syrichta	ENSTSYG00000006573	1 retrocopy	retro_tsyr_1006,