RetrogeneDB ID: retro_ogar_159

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873752.1:353838..354639(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000001834
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: B4UT15_OTOGA
• Ensembl ID: ENSOGAG00000030456
• Aliases: None
• Description: Mitochondrial ribosomal protein L9 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B4UT15]

Sequence

>retro_ogar_159
GCGGCCACGGTTATGGCGCCAGGCAGAGCTCTTCTGCGGGTGGGCGCTGAGTTGCTGCAGCGAGGAAGGATCCGGGAACT
ACTCCGGCCGCGACTTGAAGTGAGCACCCCCGGCCCGCTGCGCGACTTCAGCCTCTCTCAAAACTGGGGCACGGTCATCG
TGGAGCGCTGGTGGAAGGTGCCGCTGTCTGGAAAGGGCCGAAAGCCGCGCTTGCACCGGCGACACCGCGTCTATAAGCTA
GTGGAGGACACTAAACATCAGCCGAAAGAAAACCTGGACCTCATCCTTACGCAGTCTGTGGAGGAACTTGGAGTCCGGGG
TGACCTGGTCTCAGTGAAGAAATCTGTGGGTCGTAATCGACTCCTTCCTCAGGGGCTCGCTGTATATGCATCCCCCGAAA
ACAAGAAGCTGTTTGAAGAGGAGAAATTGCTGAGACAAGAAGGAAAATTAGAAAAGATCCAGACCAAGGCAGGTGAGGCG
ACGGTGAAATTTCTAAGAAGTTGTCACCTCGAGGTGGGAATGAAGAACAATATCACATGGGAGCTGAACCCGGAAATAGT
TGCCCGCCACTTTTTCAAGAATCTTGGTGTTGTGGTCGCCCCACATACATTAAAGTTACCAGAAGAGCCTATCACAAGGT
TCGGCGAGTACTGGTGTGAGGTAACTGTAAATGGCCTTGACACTGTGAGAGTACCTATGTCTGTGGTGAACTTTGAGAAG
CCCAAGACCAAAAGATACAAGTACTGGTTGGCTCAGCAAGCTGCCAAGGGCGTGGCTCCCACTACCTCCCAGACAGGCTA
A

Alignment

ORF - retro_ogar_159 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.44 %
• Parental protein coverage: 98.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAVVVAAGRALLRAGTDLLRRDRVRELLPPRLEVGTPVPQPDFSLSQNRGTVTVKRWWKVQLAGEGRKPR
          AA.V.A.GRALLR.G..LL.R.R.RELL.PRLEV.TP.P..DFSLSQN.GTV.V.RWWKV.L.G.GRKPR
Retrocopy AATVMAPGRALLRVGAELLQRGRIRELLRPRLEVSTPGPLRDFSLSQNWGTVIVERWWKVPLSGKGRKPR

Parental  LNRLHRVYKLVEDAKHRPKENLKLSLTQSVEELGVRGDLVSVKKSVGRNHLLHQGIAIYASPENKKLFEE
          L.R.HRVYKLVED.KH.PKENL.L.LTQSVEELGVRGDLVSVKKSVGRN.LL.QG.A.YASPENKKLFEE
Retrocopy LHRRHRVYKLVEDTKHQPKENLDLILTQSVEELGVRGDLVSVKKSVGRNRLLPQGLAVYASPENKKLFEE

Parental  EKLPRQEGKLQKIQTKEGEAMVKFLRSCHLEVAMKNKVKWELNPEIVACHFFKNLGVVVAPQTLQLPEEP
          EKL.RQEGKL.KIQTK.GEA.VKFLRSCHLEV.MKN...WELNPEIVA.HFFKNLGVVVAP.TL.LPEEP
Retrocopy EKLLRQEGKLEKIQTKAGEATVKFLRSCHLEVGMKNNITWELNPEIVARHFFKNLGVVVAPHTLKLPEEP

Parental  ITRWGKHWCKVTVNGLDTVRVPMSVVNFEKPKTKRYKYWLAQQAAKGMGHTSSQ
          ITR.G..WC.VTVNGLDTVRVPMSVVNFEKPKTKRYKYWLAQQAAKG...T.SQ
Retrocopy ITRFGEYWCEVTVNGLDTVRVPMSVVNFEKPKTKRYKYWLAQQAAKGVAPTTSQ

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_159 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000258	1 retrocopy	retro_chof_10,
Dasypus novemcinctus	ENSDNOG00000011403	1 retrocopy	retro_dnov_1989,
Homo sapiens	ENSG00000143436	1 retrocopy	retro_hsap_4078,
Gorilla gorilla	ENSGGOG00000001902	1 retrocopy	retro_ggor_2735,
Loxodonta africana	ENSLAFG00000006271	2 retrocopies	retro_lafr_498, retro_lafr_563,
Nomascus leucogenys	ENSNLEG00000010275	1 retrocopy	retro_nleu_2045,
Oryctolagus cuniculus	ENSOCUG00000001383	1 retrocopy	retro_ocun_725,
Otolemur garnettii	ENSOGAG00000030456	1 retrocopy	retro_ogar_159 ,
Pongo abelii	ENSPPYG00000000857	1 retrocopy	retro_pabe_3347,
Pan troglodytes	ENSPTRG00000001295	2 retrocopies	retro_ptro_2765, retro_ptro_2996,
Vicugna pacos	ENSVPAG00000000664	1 retrocopy	retro_vpac_123,