RetrogeneDB ID: retro_onil_15

Retrocopy location

• Organism: Tilapia (Oreochromis niloticus)
• Coordinates: GL831234.1:2080830..2081880(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSONIG00000021360
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: rxfp3.2a
• Ensembl ID: ENSONIG00000010229
• Aliases: None
• Description: relaxin/insulin-like family peptide receptor 3.2a [Source:ZFIN;Acc:ZDB-GENE-121026-2]

Sequence

>retro_onil_15
TGCTGGCTGCAGCTCCTCACCAAGGAATCTATCATGGAAATTCAAGGAGACAGCTCCAGCGTAGTGGTACGTGTGATGAT
AGCGTGCGTCTACTCTATCGTCTGCGCTCTGGGGCTGGTGGGGAATTCACTGGCTCTGTATCTGCTGCACTCCCGTTACA
GGCAGAAGCAGTCGTCCATCAACTGCTTTGTGATGGGGCTGGCTATCACAGATCTACAGTTTGTTTTGACCTTGCCTTTC
TGGGCAGTGGACACAGCCCTGGACTTCCGCTGGCCGTTTGGTCGTGTGATGTGCAAACTCATCAGCTCTGTCACCACCAT
GAACATGTATGCCAGTGTATTCTTCCTCACAGCTATGAGCGTGGCACGTTATTACTCCATCTCCTCCGCACTGAAGATAC
ACAGCCGACGGACAGCAGCTGCCAGAGCCAGGTGGACAAGCCTGTGCATCTGGGCTGTTTCTTTGCTGGCCACTTTGCCT
CATGCCATCTACTCCACCAGTGCCCAAGTATCTGATGAGGAGCTTTGCCTGGTGCGCTTCCCAGACTCTGGCAGTTGGGA
TCCACAGCTCCTTCTGGGTCTATATCAGCTTCAAAAGGTCCTAGTAGGTTTCATTATTCCTCTAGTTATAATCACCGTCT
GCTATCTGCTGCTGCTTCGCTTCATCCTAAGCCGGCGCATTGCAGGTGCAGCGGGCCCCGAGGCAAACCAAAGCCGACAA
AATCGTCATTCCAAAGTGACTAAATCCATTGTTATCGTAGTTCTCTCCTTCTTTCTCTGCTGGCTTCCTAATCAGGCACT
GACACTGTGGGGTGTGCTCATAAAGTTTGACCTTGTGCCCTTCAGCAAAGCTTTCTACAATGCACAGGCCTACGCTTTCC
CTCTGACTGTTTGCTTGGCGCACACCAACAGCTGCCTCAACCCTGTGCTCTACTGCCTGATCCGCCGGGAGTTTCGGGCA
GGCCTCAAAGAACTTCTCCTGCACGCCACGCCATCTTTCAGGAGCCTGACTCATCTGCTGCGTCGCAAGGCCAAAGTGGC
TGAGGCACCA

Alignment

ORF - retro_onil_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.52 %
• Parental protein coverage: 98.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VIALVYLVVCVLGLVGNLLALFLLHSRRRGYHHSSIDCFVMSLALTDLQFVLTLPFWAVDTLLDFRWPFG
          .IA.VY..VC.LGLVGN.LAL.LLHSR.R....SSI.CFVM.LA.TDLQFVLTLPFWAVDT.LDFRWPFG
Retrocopy MIACVYSIVCALGLVGNSLALYLLHSRYR-QKQSSINCFVMGLAITDLQFVLTLPFWAVDTALDFRWPFG

Parental  RVMCKIVSSVTTMNMYASVFFLTAMSVTRYRSLVTALRMESPRSATARAKWASSAIWVVSLVATLPHAFY
          RVMCK..SSVTTMNMYASVFFLTAMSV.RY.S...AL...S.R.A.ARA.W.S..IW.VSL.ATLPHA.Y
Retrocopy RVMCKLISSVTTMNMYASVFFLTAMSVARYYSISSALKIHSRRTAAARARWTSLCIWAVSLLATLPHAIY

Parental  STTVQVSADDELCLVRFSDSDSGHWDPQVLLGLYQTQKVLLGFVVPLIIISVCYLLLLSMVTG---SGTE
          ST..QVS.D.ELCLVRF...DSG.WDPQ.LLGLYQ.QKVL.GF..PL.II.VCYLLLL.........G..
Retrocopy STSAQVS-DEELCLVRF--PDSGSWDPQLLLGLYQLQKVLVGFIIPLVIITVCYLLLLRFILSRRIAGAA

Parental  KSECERGRHRRRSKVTRSVTIVVLSFFICWLPNQALTLWGVLIKFDLVPFSKAFYNTQAYAFPLTVCLAH
          ..E....R..R.SKVT.S..IVVLSFF.CWLPNQALTLWGVLIKFDLVPFSKAFYN.QAYAFPLTVCLAH
Retrocopy GPEANQSRQNRHSKVTKSIVIVVLSFFLCWLPNQALTLWGVLIKFDLVPFSKAFYNAQAYAFPLTVCLAH

Parental  ANSCLNPVLYCLIRKEYRTGLKELLLRISRAVQHVFSLSLRGRRVEEAP
          .NSCLNPVLYCLIR.E.R.GLKELLL...........L..R...V.EAP
Retrocopy TNSCLNPVLYCLIRREFRAGLKELLLHATPSFRSLTHLLRRKAKVAEAP

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_15 retrocopy.

TSS

Oreochromis niloticus was not studied using FANTOM5 data.

Lab

retro_onil_15 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	ENSONIG00000010229	1 retrocopy	retro_onil_15 ,