RetrogeneDB ID: retro_ogar_3045

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873702.1:2000809..2001050(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COX16
• Ensembl ID: ENSOGAG00000028663
• Aliases: None
• Description: COX16 cytochrome c oxidase assembly homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:20213]

Sequence

>retro_ogar_3045
GGTGGAGACAGGGGTGTGAAAACACACGCGAAGACTGAATCTCACAGGTCCAGAATGAGACAGACCGATCCTGAATTGGA
TAAAAAGACTGAAAGTGAGTAAAATACCTTGAGAGTCAGAGTCCAAGAAAATAAAGGACTTAACTTTTGATGATGGGAAG
AATATTAGAGGATTCAGGCATTGGGAAGATCCTGACCTCCTCCAAGGATGAAATCTAAAAATCCTTAAGACTAAGGCAAC
T

Alignment

ORF - retro_ogar_3045 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 74.53 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GGSFGLREFSQIRYDAVKIK-IDPELEK-RLKANKISLESEYEKIKDSTFDDWKNIRGPRPWEDPDFLQG
          GG..G.................DPEL.K.RLK..KI..ESE..KIKD.TFDD.KNIRG.R.WEDPD.LQG
Retrocopy GGDRGVKTHAKTESHRSRMRQTDPELDK>RLKVSKIP*ESESKKIKDLTFDDGKNIRGFRHWEDPDLLQG

Parental  RNPEILKTKTT
          .N..ILKTK.T
Retrocopy *NLKILKTKAT

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_3045 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000133983	1 retrocopy	retro_hsap_2038,
Macaca mulatta	ENSMMUG00000011089	2 retrocopies	retro_mmul_1368, retro_mmul_1391,
Nomascus leucogenys	ENSNLEG00000001776	1 retrocopy	retro_nleu_2908,
Otolemur garnettii	ENSOGAG00000028663	1 retrocopy	retro_ogar_3045 ,
Pongo abelii	ENSPPYG00000005951	2 retrocopies	retro_pabe_1663, retro_pabe_1664,
Pan troglodytes	ENSPTRG00000006494	1 retrocopy	retro_ptro_1355,
Rattus norvegicus	ENSRNOG00000047115	1 retrocopy	retro_rnor_1546,
Tarsius syrichta	ENSTSYG00000013313	1 retrocopy	retro_tsyr_1700,
Tursiops truncatus	ENSTTRG00000014791	1 retrocopy	retro_ttru_1513,