RetrogeneDB ID: retro_ogar_414

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:11991076..11991661(+)
• Located in intron of: ENSOGAG00000009140

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000005839
• Aliases: None
• Description: None

Sequence

>retro_ogar_414
GTTATTTCTTCACCAGATATATCCCATAGCAGAAGTTGGCTAAAATTATCCTAGAACTTCAACTTTCCCAACGTCAAAGA
TACAATAAAACTTTGGACAAATAGAGTATAGTCTATATATAGCTGCTGCCAGAACTGCACAGCCCAGAGGTTGGAAGAAT
TGAAAAACATCATCTTTCCAACTTGTATCTGCCACTGAAAACTTCATGGTCTAAAACAACACATTTGCATTTTGGAAAGT
GAATTACGCAAGCTCCAGGAAGCACTGAAGGCCATCTCAGAAAGAGTTTGCCCATGCTGTGGTCAAACATGTCACATGAA
TAGTAAATTTGCAAGTGGGTCTGCCCATGCTCTAACCACCCATGGAAAATCCAGAGCTGGAGCTGTACTTTCTCCCACAC
TGCCACACCCAGCCAGCCGTCTTCCTCCTGCTCCACCTCTACCCCACCACCCCTTCCACCTCCTCTCCCTCCCCCTGGCA
CCTTTGCTGCCCACAAAATCCAGTCTCACTAAAGCACTTTAGATTAGACCATTAAAAAAAGATGGGCCCATGCAGATAAC
AGATAAAAACCTACTGACTGTGAAA

Alignment

ORF - retro_ogar_414 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.5 %
• Parental protein coverage: 67.35 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VISSTDVCHSRSWLRLSWNFSLPNIKDTVKLWTNRVWSIYTWCQNCIAQSLEGLKDTIFPSRICHRELHS
          VISS.D..HSRSWL.LS.NF..PN.KDT.KLWTNRV.SIY..CQNC.AQ.LE.LK..IFP..ICH..LH.
Retrocopy VISSPDISHSRSWLKLS*NFNFPNVKDTIKLWTNRV*SIYSCCQNCTAQRLEELKNIIFPTCICH*KLHG

Parental  LKQQFSILENKLCKLQETLKAISEKSSPSCGQMCHMNSKITAVPTGVLTTPGECGAEIVPPPTLPQTANH
          LKQ...ILE..L.KLQE.LKAISE...P.CGQ.CHMNSK........LTT.G...A..V..PTLP..A..
Retrocopy LKQHICILESELRKLQEALKAISERVCPCCGQTCHMNSKFASGSAHALTTHGKSRAGAVLSPTLPHPASR

Parental  LPPPPLPPPPP-PPPLPPPPPP-LAPLLLRKSNLPKALQTRPLQKDGPMQITVKDLLTVK
          LPP....PP.P.PPPLPPP.PP.LAPLL..KS.L.KAL..RPL.KDGPMQIT.K.LLTVK
Retrocopy LPPA---PPLP<PPPLPPPLPP>LAPLLPTKSSLTKAL*IRPLKKDGPMQITDKNLLTVK

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_414 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012284	2 retrocopies	retro_chof_1813, retro_chof_294,
Mustela putorius furo	ENSMPUG00000015240	1 retrocopy	retro_mputfur_1231,
Otolemur garnettii	ENSOGAG00000005839	1 retrocopy	retro_ogar_414 ,