RetrogeneDB ID: retro_olat_41

Retrocopy location

• Organism: Medaka (Oryzias latipes)
• Coordinates: 7:26826700..26827147(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSORLG00000016726
• Aliases: None
• Description: None

Sequence

>retro_olat_41
CTCTTTTCAGCAGCTCTGCAGGACAGAGACTCTCTTGTTGATGCAGAAACCAACATCTATGCAAAACGTGAAGGAGAAGA
CATCACTGTTAGATGTTATCTTGGATATTTAGGGAGCAGAAAGCTGCTCTGTAAGGAAACATGTGAAGAAGGAAACATTC
TCATAGACACATATGGAGATGAAGATCAGAGAGGAAGATACAGCATTAAATATGAGTATCGATATATTGGATCAAGTATT
TTAGATGTGACGATCACTAAACTCACAAAGTCAGACTCAGGTTTGTACAGATGTGAATTACAAGAAGACTGGCATCCAGA
TTCAGAAGACAACTTCAAAATAATCGTTACAGAAGGTGAGTTTGATCCTCAAAATCATCAAAATATTTCTCTGTGAAAAT
TTGTGCCTTTTGTTTCATGTTTATTACAGTTTTTTTACCTCTGCTTA

Alignment

ORF - retro_olat_41 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.18 %
• Parental protein coverage: 64.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LFLTALQDRDSLVDAETNIYAKREGEDITVRCYLGYLGSRKLLCKETCEEGNILIDTYGDEAQRGRYSIK
          LF..ALQDRDSLVDAETNIYAKREGEDITVRCYLGYLGSRKLLCKETCEEGNILIDTYGDE.QRGRYSIK
Retrocopy LFSAALQDRDSLVDAETNIYAKREGEDITVRCYLGYLGSRKLLCKETCEEGNILIDTYGDEDQRGRYSIK

Parental  YEYRYIRSSILDVTITKLIKSDSGLYRCELQKDLSPDSEDNFKIIITEASVTSAPTRTVELSPTKPISFG
          YEYRYI.SSILDVTITKL.KSDSGLYRCELQ.D..PDSEDNFKII.TE............L....P....
Retrocopy YEYRYIGSSILDVTITKLTKSDSGLYRCELQEDWHPDSEDNFKIIVTEGEFDPQNHQNISL*KFVPFVSC

Parental  LLLYVSLTL
          LL....L.L
Retrocopy LLQFFYLCL

Legend:

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

Expression

RNA-Seq

Oryzias latipes was not studied using RNA-Seq expression data.

ChIP-Seq

Oryzias latipes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_olat_41 retrocopy.

TSS

Oryzias latipes was not studied using FANTOM5 data.

Lab

retro_olat_41 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_olat_41 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryzias latipes	ENSORLG00000016726	2 retrocopies	retro_olat_41 , retro_olat_42,