RetrogeneDB ID: retro_ogar_1555

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873551.1:13152662..13153068(+)
• Located in intron of: ENSOGAG00000004342

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBTD2
• Ensembl ID: ENSOGAG00000011997
• Aliases: None
• Description: ubiquitin domain containing 2 [Source:HGNC Symbol;Acc:24463]

Sequence

>retro_ogar_1555
GGGCAGATGGTCAGGCACCAGAAAGACTCCTTGGGCAGTCTCAATAAACATTTAGAAGACACTGGAGTTTGTGGTAGCTG
GTAACTAGTCTTTAACAAAAAAGAAACCAAAATGGGAAAGTAATTATCCCTTGACAGATAGACAACTGGGTGGTAAGAGG
GATGAGTTTTGGGATACTGCACCAGATTTTGAAGGCTGTAAAGAGATTTGGCATGCCTCGGAGGCTGCTGCTCATGCTTG
TGGAAGCAATGATGGTGAACTGGCAGGAGCAATCCGTGATGGTACAAACGTGACGTGACCGCATGGATCCCTGGCAGAGT
GCTGAGGAGAGCCGGGGAGCAGACAGCCTCTGGTCTACTGCTTGGCACCACTACTCAGTGTGACAGAGTGGCATAGTGAC
TCTGAA

Alignment

ORF - retro_ogar_1555 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.42 %
• Parental protein coverage: 58.3 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGCVGAQHDSSGSLNENSEGTGVA-LGRNQPLKKEKPKWKSDYPMTDGQLRSKRDEFWDTAPAFEGRKEI
          G..V..Q.DS.GSLN...E.TGV.....N..L.K.KPKW.S.YP.TD.QL..KRDEFWDTAP.FEG.KEI
Retrocopy GQMVRHQKDSLGSLNKHLEDTGVC>VAGN*SLTKKKPKWESNYPLTDRQLGGKRDEFWDTAPDFEGCKEI

Parental  WDALKAAAHAFESNDHELAQAIIDGANITLPHEGALTECYDELGNRYQLPVYCLAPPINMIEEKSDIE
          W.A..AAAHA..SND.ELA.AI.DG.N.T.PH.G.L.EC..E.G.R..L.VYCLAP.....E..SD.E
Retrocopy WHASEAAAHACGSNDGELAGAIRDGTNVT*PH-GSLAEC*GEPGSRQPL-VYCLAPLLSVTEWHSDSE

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_1555 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000011997	1 retrocopy	retro_ogar_1555 ,