RetrogeneDB ID: retro_oluc_1

Retrocopy location

• Organism: Ostreococcus lucimarinus
• Coordinates: 2:473455..474730(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: OSTLU_119518
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: OSTLU_119545
• Aliases: None
• Description: None

Sequence

>retro_oluc_1
ATGGTCGCCAAGGAAAGGGTGTGCTACTACTATGACGAAGAAGTTGGTAGAAACTACTACGGGCCGAACCACCCCATGAA
GCCTCATCGCTTGTGCATGACGCACAATTTGATTTTGGCCTATGATTTGCATAAACACCTGCAAGTTTTCAGGCCACGAG
CCTGCACGAACACAGAATTCACTCAGTTTCATAGCGAAGATTACGTCGATTTCTTGTCAAAAATAACTCCTGACAAGCAG
CAACAATACGTTTTAGAAATGCAAAGATTCAACCTTGGCGAAGACTGCCCCATTTTCGATCACATGCTTGACTTTTGTCG
ACGGTACACAGGTGGGTCCATTGACGGAGTCCGGCGATTGAATCAGGGGGTATCAGACATTGCCATAAACTGGTCTGGAG
GTTTACACCATGCAAAGAAGGCAGAAGCTTCGGGATTTTGCTACATCAACGACCTCGTGTTAGCGATACTAGAACTCCTG
AAGCAACATGCACGGGTCGTGTACATAGATATAGATATTCATCACGGTGACGGAGTGGAAGAAGCATTTTACATGACTGA
TCGAGTGATGACCGTCAGTTTTCATAAATATGGCGATATGTTCTTCCCGGGCACAGGTGGTTTGAGGGACATCGGCATAA
ACTCGGGAAAATACTACAGTGTCAATGTGCCCTTGAATGATGGCATAGATGACAAAAGCTTTGTGGATCTATTCAAATTT
GTCATGCAAGACGTGATGGATTCATTCCAACCAGGCGCCATCGTCCTCCAATGCGGCGCTGATTCACTAGCTGGCGATCG
AATCGGTTGCTTTAACCTTTCACTGAAAGGTCACGCAGAATGTGTTTCCTTCATGAAAAGTTTTGCGAAGCCGATACTTG
TTACAGGTGGCGGAGGCTATACGAAATCCAATGTAGCCAGATGCTGGGCGAATGAGACAGCAACTCTCCTAGGTAAACAA
CTGGTAGAACATATTCCACCGCACGAGAACTATTACGAGTATTACGCCGATGCAGGATACAAGTTGAAGGCACACGCGCC
GGTGTGGATAGAAAATTTGAACACACCTTCATACTTGAATCAGGTGAAAGAAAAAGTTCGGCAAAACTTGAAATCCCTCA
CGTTCGCACCGAGTGTTGAATTCAGCGAAGCACCTCCCGCCGTCCTCGTACCGGAGTTGGACGAGAGTGATCTGAACCCA
GACGAAAGATATGGCGGGAGTTTGGGTCAAGACAGCGTCGTCATAAGTAAGGAAGAGTTCTACGAAAACGACTAA

Alignment

ORF - retro_oluc_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.25 %
• Parental protein coverage: 67.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKKIAYFYDQEVGNFYYGQGHPMKPHRMRMTHNLLLHYDLYKDMEVFQPTPAQADDMTQFHSDEYIEFLR
          K....Y.YD.EVG..YYG..HPMKPHR..MTHNL.L.YDL.K...VF.P........TQFHS..Y..FL.
Retrocopy KERVCYYYDEEVGRNYYGPNHPMKPHRLCMTHNLILAYDLHKHLQVFRPRACTNTEFTQFHSEDYVDFLS

Parental  LVTPDNQHEHMRQLKRFNVAEDCPVFDGLFRFCQLYTGGSVGGAVRLNHGLSETVINWSGGLHHAKKSEA
          ..TPD.Q........RFN..EDCP.FD....FC..YTGGS..G..RLN.G.S...INWSGGLHHAKK.EA
Retrocopy KITPDKQQQYVLEMQRFNLGEDCPIFDHMLDFCRRYTGGSIDGVRRLNQGVSDIAINWSGGLHHAKKAEA

Parental  SGFCYVNDIVLAILELLKQHQRVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKFGE-YFPGTGHLQDIGQ
          SGFCY.ND.VLAILELLKQH.RV.YIDIDIHHGDGVEEAFY.TDRVMTVSFHK.G...FPGTG.L.DIG.
Retrocopy SGFCYINDLVLAILELLKQHARVVYIDIDIHHGDGVEEAFYMTDRVMTVSFHKYGDMFFPGTGGLRDIGI

Parental  HAGKYYSVNVPLKDGIDDESYELLYKPLMSKVMEIYQPDAVVFQSGADSLSGDRLGCFNLSIKGHAECLK
          ..GKYYSVNVPL.DGIDD.S...L.K..M..VM...QP.A.V.Q.GADSL.GDR.GCFNLS.KGHAEC..
Retrocopy NSGKYYSVNVPLNDGIDDKSFVDLFKFVMQDVMDSFQPGAIVLQCGADSLAGDRIGCFNLSLKGHAECVS

Parental  YMTTFNVPLLVLGGGGYTIRNVARCWAYETGCLLDRELVDAMPQND-YSEYF
          .M..F..P.LV.GGGGYT..NVARCWA.ET..LL...LV...P....Y.EY.
Retrocopy FMKSFAKPILVTGGGGYTKSNVARCWANETATLLGKQLVEHIPPHENYYEYY

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_1 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Brachypodium distachyon	BRADI1G37290	1 retrocopy	retro_bdis_2,
Ostreococcus lucimarinus	OSTLU_119545	1 retrocopy	retro_oluc_1 ,
Sorghum bicolor	Sb04g007470	1 retrocopy	retro_sbic_23,