RetrogeneDB ID: retro_onil_24

Retrocopy location

• Organism: Tilapia (Oreochromis niloticus)
• Coordinates: GL831212.1:2737102..2738050(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSONIG00000021284
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: npy2rl
• Ensembl ID: ENSONIG00000014098
• Aliases: None
• Description: neuropeptide Y receptor Y2, like [Source:ZFIN;Acc:ZDB-GENE-111115-4]

Sequence

>retro_onil_24
GACAGCACAAGGCTGGTTGCAGTTCAAGTTATCCTCATCCTCGCTTACAGCACAATCATCTTGTTTGGAGTCACTGGGAA
CTCCTTAGTGATATACGTCGTCTACAAGTTCAAAAACCTGCGGACCGTGACCAATTTCTTTATCGTAAACTTGGCTGTTG
CTGACTTGCTCGTAAACACGCTGTGCTTACCTTTCACCCTTGTCAACACCCTCTATGGCAAATGGATGTTTGGTCAGGTG
TTATGCTTCATGCTACCCTGTGCTCAAGGCATGGCTGTGCACGTGTCCACCATCACTCTGAATATCATTGCTCTGGACCG
CCACAGGAACATTGTCTACCACATGGAGACTAAAATGTCCAAAGACATGTGTGCTGTTGTTATCGTCATCACGTGGGCCG
TCAGTGCCCTGTTGGCCAGTCCGCTTGCCATTTTCAGGGAGTACGAGATGCTTGATCTGTCACCGGCCGATACTCTTCAC
GTGTGTGCGGAGAAGTGGCCGGGAAGCAGCATGAATGGAGCCATCTACAGTATATCGATGCTTCTGGTTCAGTACTGTTT
GCCTTTAATAATCAACTCTGTCGCTTACATTCGCATCTGGAATAAACTGAAGAATCACATGGCTCATCGAAACGATCGAA
ATGACCGTAATCAGCGAAGGAAGAAGACCACCAAGATGCTCCTGACCATGGTGGTGGTCTTCGCCGTCAGCTGGTTGCCT
TTCCACGCCTTCCAGTTGGCCGTTGACATCGACAGCAGCGTGCCATACATGAAGGACTTCAAGCTGCTTTTCACTGTGTT
CCATATCATAGCGATGTGCTCAACATTCGTCAACCCCATCCTGTACGGCTGGATGAACAACAACTACAGGATGGCTTTTA
TGTCTGTGTTTAAGTGTTACCCACTTTCCAGCGTGACCGCGAGATGCTCCAAAGCCAGAGAGACACAG

Alignment

ORF - retro_onil_24 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.59 %
• Parental protein coverage: 75.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DPISLPSVQVVLILAYSTIIVLGVLGNSLVIYVIYRFKTLRTVTNFFIANLAVADLLVNTLCLPFTLVYT
          D...L..VQV.LILAYSTII..GV.GNSLVIYV.Y.FK.LRTVTNFFI.NLAVADLLVNTLCLPFTLV.T
Retrocopy DSTRLVAVQVILILAYSTIILFGVTGNSLVIYVVYKFKNLRTVTNFFIVNLAVADLLVNTLCLPFTLVNT

Parental  LQGEWKFGSTLCFLLPYAQGLTVHVSTVTLNVIALDRHRCIVYHLETRMRKDVCFAVIALTWVLSAILAS
          L.G.W.FG..LCF.LP.AQG..VHVST.TLN.IALDRHR.IVYH.ET.M.KD.C..VI..TW..SA.LAS
Retrocopy LYGKWMFGQVLCFMLPCAQGMAVHVSTITLNIIALDRHRNIVYHMETKMSKDMCAVVIVITWAVSALLAS

Parental  PLAIFREYGSFTLEPGHTIQACMEKWPGTNTDGTIYSISMLILQYFLPLSIISFAYARIWSKLRGHVSPA
          PLAIFREY....L.P..T...C.EKWPG....G.IYSISML..QY.LPL.I.S.AY.RIW.KL..H...A
Retrocopy PLAIFREYEMLDLSPADTLHVCAEKWPGSSMNGAIYSISMLLVQYCLPLIINSVAYIRIWNKLKNHM--A

Parental  ESGGNSSAASERHRRRRKTTKMLVTMVVVFAVSWLPFHAFQLATDIDSTVLDMRDFRLLYTVFHVIAMCS
          ...........R.........M.V...V....SWLPFHAFQLA.DIDS.V..M.DF.LL.TVFH.IAMCS
Retrocopy HRNDRNDRNQRRKKTTKMLLTMVVVFAV----SWLPFHAFQLAVDIDSSVPYMKDFKLLFTVFHIIAMCS

Parental  TFANPLLYGWMNRNYRAAFLAVFKC
          TF.NP.LYGWMN.NYR.AF..VFKC
Retrocopy TFVNPILYGWMNNNYRMAFMSVFKC

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_24 retrocopy.

TSS

Oreochromis niloticus was not studied using FANTOM5 data.

Lab

retro_onil_24 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Danio rerio	ENSDARG00000057718	1 retrocopy	retro_drer_6,
Oreochromis niloticus	ENSONIG00000014098	1 retrocopy	retro_onil_24 ,
Xiphophorus maculatus	ENSXMAG00000008242	1 retrocopy	retro_xmac_16,