RetrogeneDB ID: retro_onil_67

Retrocopy location

• Organism: Tilapia (Oreochromis niloticus)
• Coordinates: GL832003.1:38431..39202(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSONIG00000013199
• Aliases: None
• Description: None

Sequence

>retro_onil_67
GCTGCAGTCGTGGTTGTTGCCAAAGTGGTTGTTGTTGTTGGAGCTGCAGTCGTGGTCGTTGTATCAGGTGCTGTGGTTGT
TGGAGCTGCAGTCGTGGTTGTTGGTGCATTTGCTGTGGTTGTTGGTGCGGCTGTTGTGGTTGTTGGAGCTGCAGTCGTGG
CTGTTGCTGCAGTGGTTGGTGTTGTTGGAGCTGCAGTCGTGGTTGTTAGTGCGGCTGTTGTGGTTGTTGGAGCTGCAGTT
GTGGTTGTTGGTGCGACTGTTGTGGTTGTTGGAGCTGCAGTCGTGGTTGTTGCTGCAGTGGTAGGTGTTGTTGGAGCTGC
AGTCGTGGTTGTTGGAGTAGGTGTTGTGGTTGTTGGAGCTGCAGTCGTGGATGTTGGAGCTGCACTTGTGGTTGTTGGAG
AGGGTTTTGTGGTTGTTGGACCTGCAGTCGTGGTTGTAGGAGCTGCAGTCGTGGTTGTTGGTGCGGCTGTTGTGGTTGTT
CCTGCGGCTGTTGTGGTTGTTGGAGCTGCCGTCGTGGTTGTTGGTGCGGCTGTTGTGGTTGTTGGAGCTGCCGTCGTGGT
TGTTGGAGCGGCTGTTGNNNNNNNNNNNNNNNNNNNNGTGGATGTTGGAGCTCCCGTTGTGGTTGTTGGAGCTGCAGTCG
TGATTGTTGGTGAGCCTGTTGTGGTTGTTGAAGCTGCAGTCGTGGTTGTTGGAGGTGCAGTCGTGGTTGTTGGTGCGGCT
GCTGTGGTTGTCGGAGCTGCTGTTGTGGTTGTTGGTGCAGCTGTTGTGGTT

Alignment

ORF - retro_onil_67 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.09 %
• Parental protein coverage: 53.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AVVVVVGEAVVVVGEAVVVVWAAVVVVAAAVVVVGAVVVVVGAVVVVVGAVVVVVGATVVVVGAVVVVVW
          A.VVVV...VVVVG.AVVVV....VVV.AAVVVVGA..VVVGA.VVVVGA.VV.V.A.V.VVGA.VVVV.
Retrocopy AAVVVVAKVVVVVGAAVVVVVSGAVVVGAAVVVVGAFAVVVGAAVVVVGAAVVAVAAVVGVVGAAVVVVS

Parental  AAVVVVGAVVVVVGAAVVVVGAVVVVVGAVVIVVAAAVVVVGAVVVVVGAVVVVVGAVVVVVGAIVFVVA
          AAVVVVGA.VVVVGA.VVVVGA.VVVV.AVV.VV.AAVVVVG..VVVVGA.VV.VGA..VVVG....VV.
Retrocopy AAVVVVGAAVVVVGATVVVVGAAVVVVAAVVGVVGAAVVVVGVGVVVVGAAVVDVGAALVVVGEGFVVVG

Parental  AVVVVVVAVVVVVGAAVIVVGAVVVVVGAAVVVVGAVVVVVGAVVVVVWAAVVVVAAAVVVVGAVVVAVW
          ..VVVV.A.VVVVGAAV.VV.A.VVVVGAAVVVVGA.VVVVGA.VVVV.AAV.......V.VGA.VV.V.
Retrocopy PAVVVVGAAVVVVGAAVVVVPAAVVVVGAAVVVVGAAVVVVGAAVVVVGAAVXXXXXXXVDVGAPVVVVG

Parental  VVVVVVGAVVVVVAAAVVVVGAVVVAVWAVVVVVGAVVVVVVGAAVVV
          ..VV.VG..VVVV.AAVVVVG..VV.V.A..VVVGA..VVVVGAAVVV
Retrocopy AAVVIVGEPVVVVEAAVVVVGGAVVVVGAAAVVVGA-AVVVVGAAVVV

Legend:

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

Expression

RNA-Seq

Oreochromis niloticus was not studied using RNA-Seq expression data.

ChIP-Seq

Oreochromis niloticus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_onil_67 retrocopy.

TSS

Oreochromis niloticus was not studied using FANTOM5 data.

Lab

retro_onil_67 was not experimentally validated.

Homology

Retrocopy orthology:

Oreochromis niloticus 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Oreochromis niloticus	ENSONIG00000013199	2 retrocopies	retro_onil_66, retro_onil_67 ,