RetrogeneDB ID: retro_onil_35

Retrocopy location

• Organism: Tilapia (Oreochromis niloticus)
• Coordinates: GL831143.1:7813881..7814946(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSONIG00000020922
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: PAQR8 (2 of 2)
• Ensembl ID: ENSONIG00000003353
• Aliases: None
• Description: progestin and adipoQ receptor family member VIII [Source:HGNC Symbol;Acc:15708]

Sequence

>retro_onil_35
ATGTCGACTGAGGTTTTGCAGCGGCTCAGCACCATAACACTGAGCACCAAGCACCTGCGTCGTCTCCCTCACCTCTCAGA
CTTCCTCCCTTTCTCTTTACCATCACCCAGCCCCACCGTCACTGCCTCCCACGTACCCAGCCTGTTCCGGGAACCCTACA
TCCTGTCAGGATACCGTCCTGTCCAGCAAGACTGGCGCTGCTATCTTCTCAGCCTCTTCCAGAAACATAATGAGTCCCTG
AACGTGTGGACCCACTTGCTGGCCGGTCCTGTCCTGCTGCTCCGCTGGTGGGCCAATGTAGACACCCTGGGGTACACCTT
GGATACGGCCTCGCTACCTCTGCTCCTGTTCTTGGTGTCATCTCTCACATATCTGTACCTCAGTGTGGCGGCTCATCTCC
TGCAATCTCACTCTGAACGCGCACACTACTTCTTCTTCTTCTTGGACTACGTGGGTGTGGCCGTGTATCAGTACGGGTGT
TCGCTCGGCCACTATTTCTACGCGTCTGAGCCAGCGTGGCGAGAACGCGTCGGGGTGATGTTTCTGCCTGGCGCCGCCTT
CTTTGGGTGGCTCTCCTGCACCGGTTGCTGTTATGCCAAGTTTAGGTACAGGCGGCCATATCCGCCTCAGCGTAAAGTCT
GCCAGCTGATCCCCACCGGCTTAGCGTACGTGCTGGATATCAGCCCCATAGCCCACCGCCTGCTCACTGTCTCCTGGTCA
CAGGAGCCCTCGCTGCCCTTCCACGCTCTCCAGATCGCCTGCTTCCTCTTGTCTGCAGTCTTCTTCTCTTGCCCCATCCC
GGAGCGCTTCTTTCCAGGCCACTGTGACTTTGCAGGCCAGGGTCACCAAATCTTCCACATGCTTCTGTCCCTGTGCACCT
TGTCCCAGCTGGAGGCTTTGTTCCAGGACTACGCCCAGCGGAGGGATACAGTGGTGGAGTTATTTGGGGAGTGGCAGTTG
TGGTGGGCGTGCGTATCCTTCCCCGTCCTGTTAGTGTGCTGCATCCTGACGGCGCTGATCGCAGTGAAGCACATGAGCAA
GGCACTGCAGAGTAAAGACGAGTGA

Alignment

ORF - retro_onil_35 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.71 %
• Parental protein coverage: 69.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GFSVDASSLPLVLYVLSAVTYLSCSAAAHLLQSHSEQAHYSLFFLDYVGVAVYQYGCALALCLYSSNTAW
          G...D..SLPL.L...S..TYL..S.AAHLLQSHSE.AHY..FFLDYVGVAVYQYGC.L....Y.S..AW
Retrocopy GYTLDTASLPLLLFLVSSLTYLYLSVAAHLLQSHSERAHYFFFFLDYVGVAVYQYGCSLGHYFYASEPAW

Parental  RQSMLGQVFLPAAALLAWLSCTACCYAKLRFRRPYPLHRKLCQLIPMGVAYLLDISPVAHRLATHSWMGS
          R....G..FLP.AA...WLSCT.CCYAK.R.RRPYP..RK.CQLIP.G.AY.LDISP.AHRL.T.SW...
Retrocopy RERV-GVMFLPGAAFFGWLSCTGCCYAKFRYRRPYPPQRKVCQLIPTGLAYVLDISPIAHRLLTVSWSQE

Parental  PALPLHFLQVVLFMLSAFFFSCPVPECFSPGHFDIVGHGHQLFHILLSLCTLAQQEALFHDFLWRRPAMV
          P.LP.H.LQ...F.LSA.FFSCP.PE.F.PGH.D..G.GHQ.FH.LLSLCTL.Q.EALF.D...RR...V
Retrocopy PSLPFHALQIACFLLSAVFFSCPIPERFFPGHCDFAGQGHQIFHMLLSLCTLSQLEALFQDYAQRRDTVV

Parental  REFGEERLLLACASFPCLMLCCTLTAL-AMRRQAQAQLMKEQ
          ..FGE..L..AC.SFP.L..CC.LTAL.A......A...K..
Retrocopy ELFGEWQLWWACVSFPVLLVCCILTALIAVKHMSKALQSKDE

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_35 retrocopy.

TSS

Oreochromis niloticus was not studied using FANTOM5 data.

Lab

retro_onil_35 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Oreochromis niloticus	ENSONIG00000003353	1 retrocopy	retro_onil_35 ,