RetrogeneDB ID: retro_ogar_1839

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873569.1:9711605..9711880(+)
• Located in intron of: ENSOGAG00000005196

Retrocopy information

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

Parental gene information

• Parental gene symbol: BOLA3
• Ensembl ID: ENSOGAG00000003502
• Aliases: None
• Description: bolA homolog 3 (E. coli) [Source:HGNC Symbol;Acc:24415]

Sequence

>retro_ogar_1839
GCAGTGTCTCTGATCAGCGGGATCCATGGTTGCCTCTTCTTCACTCTGTTAAGTGGAAGTTTATCTTCCAGACTGAGGAG
GAGCTCAAACTGACCTAAATTCCCAAAGAAAAGTTTCTTCAAGCTACAGCTATCAGTCACTGACATTTCAGGAGGCTGTG
GGGCAATGTAGGGAAATTAAAAATTGAATCTGAAGAATTTAAGGAAAACTGGCAGCACCAAGTGGTTAATCAGGCACTAA
AAGAAGAAACCAAAAGTATGCAGGGATTTTGGATA

Alignment

ORF - retro_ogar_1839 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.33 %
• Parental protein coverage: 86.36 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AASLLRGIRG-LPLLHSVNRKFASQTEGELKVTQILKEKFPRATAIKVTDISGGCGAMYEIKIESEEFKE
          A.SL..GI.G.LPLLHSV..KF..QTE.ELK.T.I.KEKF..ATAI.........G.....KIESEEFKE
Retrocopy AVSLISGIHG<LPLLHSVKWKFIFQTEEELKLT*IPKEKFLQATAISH*HFRRLWGNVGKLKIESEEFKE

Parental  KRTVQQHQMVNQALKEEIKGMHGLRI
          .....QHQ.VNQALKEE.K.M.G..I
Retrocopy N---WQHQVVNQALKEETKSMQGFWI

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_1839 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008739	1 retrocopy	retro_cfam_1574,
Callithrix jacchus	ENSCJAG00000017844	1 retrocopy	retro_cjac_1112,
Dasypus novemcinctus	ENSDNOG00000008309	2 retrocopies	retro_dnov_2474, retro_dnov_510,
Myotis lucifugus	ENSMLUG00000016364	1 retrocopy	retro_mluc_1407,
Mustela putorius furo	ENSMPUG00000007813	1 retrocopy	retro_mputfur_1519,
Mus musculus	ENSMUSG00000045160	1 retrocopy	retro_mmus_1648,
Oryctolagus cuniculus	ENSOCUG00000016658	1 retrocopy	retro_ocun_51,
Otolemur garnettii	ENSOGAG00000003502	1 retrocopy	retro_ogar_1839 ,
Sorex araneus	ENSSARG00000001754	1 retrocopy	retro_sara_83,
Sus scrofa	ENSSSCG00000008291	1 retrocopy	retro_sscr_750,
Tursiops truncatus	ENSTTRG00000006698	3 retrocopies	retro_ttru_1149, retro_ttru_1493, retro_ttru_254,