RetrogeneDB ID: retro_onil_13

Retrocopy location

• Organism: Tilapia (Oreochromis niloticus)
• Coordinates: GL831160.1:1909125..1910424(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSONIG00000021088
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: gpr22
• Ensembl ID: ENSONIG00000014203
• Aliases: None
• Description: G protein-coupled receptor 22 [Source:ZFIN;Acc:ZDB-GENE-041210-48]

Sequence

>retro_onil_13
ATGTGCCCTGAAAAAGAAGCCACCATGAGCAACGTCACGGTCACCGACAACACTGAGCCCATCAGCGGCACCATGAGTCC
GGCGACCCCCAGCCTATATCCTGTTAGTTTTCAGGTCTCTCTGACAGGCTTCCTCATGCTAGAAATCCTGCTTGGCCTGA
GCTCCAACCTCACTGTGCTTGCCCTTTACTGCATGAAGTCAAACCTCATTAGCTCCGTCAGTAACATCGTCACTATGAAC
CTCCATGTGCTGGATGTACTGGTTTGCTTGTGCTGCATCCCACTCACCATTGTGGTGGTCCTACTCTCCCTGGAAGGAGA
CACAGCCCTCGTCTGTTGCTTCCATGAAGCCTGTGTTTCCTTTGCTAGTGTTGCCACTGCTGCTAATGTGCTGGCCATCA
CCCTTGATCGTTACGACATCTCTGTCAAACCAGCCAACAGAGTCCTGACCATGGGTCGTGCCCTGGCCCTGCTGGCCACC
ATCTGGGTGCTATCCTTTGTTAGCTTCCTTGTACCCTTTATTGAGGTGGGCTTCTTTGCTCAAGGCTACACAGAGCGGAA
CCAGACACTGGTGGAGAACGTGGTCCCCACTAACCAGTACTACAATGAACTTGGCCTCTATTACCACTTGCTTGCTCAGA
TTCCTATTTTCTTCTTTACTGCAATTGTCATGCTGATCACCTACTCAAAGATCCTGCAAGCGCTCAACATTCGCATTGGT
ACGCGTTTCCATGCTTCACAGAAGAAGAAAGCTCGCAGGAAAAAGCGTCTGTCCATGACAACCATGACAACACAGCAAGA
GACCACGGACGGCTCACAGAGCAGTGGCACCCGTAATCCCACGCTGGGTATGCGAACCTCCGTCTCCGTCATTATTGCTT
TGCGCAGGGCGGTTAAACGTCACAGGGAAAGACGGGAACGCCAAAAGAGAGTTTTCAGAATGTCCCTCCTCATCGTGTCT
ACTTTTTTGCTGTGCTGGACGCCCATCACGGTACTAAACACAGTAATCCTCAGCGTGGGCCTCAGTGACCTGATGGTCAA
GTTGCGACTAGGCTTCCTGGTCATGGCTTATGGGACAACTATCTTTCACCCACTACTCTATGCCTTCACAAGGCAGAAGT
TCCAGAAAGTCTTGAAAAGCAAGATGAAGAAGCGAGTGGTGTCAATAATTGAGGCGGACCCTACCCCCAATAACGCTATT
ATTCACAACTCTTGGATTGACCCAAAGAGGAACAAAAAGGTGACGTTTGAGGACAAAGACGCCCAACTGAAATGTCTATC
TTCAGAGAATGTGGAGTGA

Alignment

ORF - retro_onil_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.78 %
• Parental protein coverage: 97.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATMSNTTVLDTADPSDLDMN-SSEAIYPISFQASLTGFLLLEIILGLSSNLTVLILYCMKQNLISSVSNI
          ATMSN.TV.D...P....M.......YP.SFQ.SLTGFL.LEI.LGLSSNLTVL.LYCMK.NLISSVSNI
Retrocopy ATMSNVTVTDNTEPISGTMSPATPSLYPVSFQVSLTGFLMLEILLGLSSNLTVLALYCMKSNLISSVSNI

Parental  ITMNLHVVDVLICVCCIPLTTVVILIPLEVDTAMMCCFHEACVSFTSVATAANVLAITVDRYDISVRPAN
          .TMNLHV.DVL.C.CCIPLT.VV.L..LE.DTA..CCFHEACVSF.SVATAANVLAIT.DRYDISV.PAN
Retrocopy VTMNLHVLDVLVCLCCIPLTIVVVLLSLEGDTALVCCFHEACVSFASVATAANVLAITLDRYDISVKPAN

Parental  RVLTMGRAVVLLGSIWALSFFSFLVPFMEVGFFIRSSSYLLNQTTVVSVPHTNEYYTEVGLYYHLLAQIP
          RVLTMGRA..LL..IW.LSF.SFLVPF.EVGFF........NQT.V..V..TN.YY.E.GLYYHLLAQIP
Retrocopy RVLTMGRALALLATIWVLSFVSFLVPFIEVGFFAQGYTER-NQTLVENVVPTNQYYNELGLYYHLLAQIP

Parental  IFFFTAVVMLVTYYKILQALNIRIGTRFQNNLPKKKQKSKNTISLSTAAQAESTEVSQSSTGVRAGGNAP
          IFFFTA.VML.TY.KILQALNIRIGTRF.....KK....K.........Q.E.T..SQSS.G.R...N..
Retrocopy IFFFTAIVMLITYSKILQALNIRIGTRFHASQKKKARRKKRLSMTTMTTQQETTDGSQSS-GTR---NPT

Parental  LGMRASVSVIIALRRAVKRHRERRERQKRVFRMSLLIISTFLFCWTPITVLNTIILSTGPSDLTDRLRLG
          LGMR.SVSVIIALRRAVKRHRERRERQKRVFRMSLLI.STFL.CWTPITVLNT.ILS.G.SDL...LRLG
Retrocopy LGMRTSVSVIIALRRAVKRHRERRERQKRVFRMSLLIVSTFLLCWTPITVLNTVILSVGLSDLMVKLRLG

Parental  FLVMAYGTTIFHPLLYAFTRQKFQKVLKSKMKKRVVSVVEADPTPNNVVIHNSWIDPRRNKKVTFEDTEA
          FLVMAYGTTIFHPLLYAFTRQKFQKVLKSKMKKRVVS..EADPTPNN..IHNSWIDP.RNKKVTFED..A
Retrocopy FLVMAYGTTIFHPLLYAFTRQKFQKVLKSKMKKRVVSIIEADPTPNNAIIHNSWIDPKRNKKVTFEDKDA

Parental  RQKCLCSQDAE
          ..KCL.S...E
Retrocopy QLKCLSSENVE

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_13 retrocopy.

TSS

Oreochromis niloticus was not studied using FANTOM5 data.

Lab

retro_onil_13 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
Gasterosteus aculeatus	ENSGACG00000019247	1 retrocopy	retro_gacu_4,
Oreochromis niloticus	ENSONIG00000014203	1 retrocopy	retro_onil_13 ,
Tetraodon nigroviridis	ENSTNIG00000007247	1 retrocopy	retro_tnig_15,