RetrogeneDB ID: retro_oluc_6

Retrocopy location

• Organism: Ostreococcus lucimarinus
• Coordinates: 5:306055..306667(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: OSTLU_15391
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: OSTLU_38767
• Aliases: None
• Description: None

Sequence

>retro_oluc_6
ATGACGAGCGACGACGCGCGCGCGTACGATCACCTGGTGAAAATCCTCCTCGTCGGCGACTCCGGGGTCGGGAAGTCGTC
GCTGCTCGCGCGATTCATCAGCGATTCGTTCGACGAGCAGGGCCCGACGGTGGGCGTGGACTTTAAACTGAAACACGTCG
ACGTCGACGGGACGAGGCTGAAGCTCACGGTGTGGGACACCGCGGGACAGGAACGGTTTCGAACGCTGACGAGCTCGTAT
TACAGAGGCGCGCACGGGGTCGTGTTCGTGTACGACGTGACGTCGAGGGAAAGCTTTGAGAACGCGCGCGAGACGTGGCG
AAAGGAGGTGGAGATGTACGGAACGATCGCGAATTCGGTGAAGATTGTGATTGGAAATAAGATCGATAGGGAAGATGAAC
GAACGGTGGCGCGGAAGGAGGGCGTGGCGTTCGCGAAGGAGTATGGGTGCTTGTTTCTGGAGTGCAGCGCGAAGACCAAG
GTGCGCGTGGCGGAGGCGTTCGACGAGTTGGTCAAGGGGATTTTGGACGCGCCGGGGTTGTTGGTGGACGAAGTCGACGA
TGGGGTGAAACTCGGCGCGTATGCCGATCGCGCGGGCGGTGGGTGCTGCTGA

Alignment

ORF - retro_oluc_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.8 %
• Parental protein coverage: 77.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YDHLLKLLLIGDSGVGKSCLLLRFSDDQFTTSFITTIGIDFKIKTVEIDGKRVKLQIWDTAGQERFRTIT
          YDHL.K.LL.GDSGVGKS.LL.RF..D.F......T.G.DFK.K.V..DG.R.KL..WDTAGQERFRT.T
Retrocopy YDHLVKILLVGDSGVGKSSLLARFISDSFDEQG-PTVGVDFKLKHVDVDGTRLKLTVWDTAGQERFRTLT

Parental  TAYYRGAMGILLVYDVSDEKSFENVR-GWMRNIEQHAS-SSVNKILIGNKCDVSEEKRAITKARGQALAD
          ..YYRGA.G...VYDV....SFEN.R..W....E.........KI.IGNK.D..E..R......G.A.A.
Retrocopy SSYYRGAHGVVFVYDVTSRESFENARETWRKEVEMYGTIANSVKIVIGNKID-REDERTVARKEGVAFAK

Parental  EFGIPFFETSAKASVNVEDAF
          E.G..F.E.SAK..V.V..AF
Retrocopy EYGCLFLECSAKTKVRVAEAF

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Ostreococcus lucimarinus was not studied using RNA-Seq expression data.

ChIP-Seq

Ostreococcus lucimarinus was not studied using ChIP-Seq data.

EST

Ostreococcus lucimarinus was not studied using EST data.

TSS

Ostreococcus lucimarinus was not studied using FANTOM5 data.

Lab

retro_oluc_6 was not experimentally validated.

Homology

Retrocopy orthology:

Ostreococcus lucimarinus 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Ostreococcus lucimarinus	OSTLU_38767	1 retrocopy	retro_oluc_6 ,
Solanum tuberosum	PGSC0003DMG400008853	1 retrocopy	retro_stub_135,