RetrogeneDB ID: retro_gmor_8

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: GeneScaffold_1510:343125..344346(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGMOG00000020366
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: fzd4
• Ensembl ID: ENSGMOG00000014266
• Aliases: None
• Description: frizzled homolog 4 [Source:ZFIN;Acc:ZDB-GENE-990415-217]

Sequence

>retro_gmor_8
GGCTCAGGCCACTCGGGCGGCGTCCCGGGGTCCTGCGAGAACCCTGAGAAGTTCCAGTACGTGGAGAAGAGCCAGTCGTG
CGCGCCGCGCTGCTCCTCGGCCGTGGACGTGTTCTGGTCGCGGCGGGACAAGGACTTCGCCTTCGTCTGGATGACGGTGT
GGTCCACGCTGTGCTTCGTGTCCACCGCCTTCACCGTGCTCACCTTCCTGCTGGACCCGCACCGCTTCCAGTACCCCGAG
CGGCCCATCATCTTCCTCTCCATGTGCTACAACGTCTACTCGGTGGCCTTCATCATCCGCTCGGTGGCCGGCGCGGAGAA
CATCGCCTGCGACCGGGAGAACGGCGAGCTGTACATCATCCAGGAGGGGCTGGAGTCCACGGGCTGCACCATCGTCTTCC
TCATCCTCTACTACTTCGGCATGGCCTCGTCCATCTGGTGGGTGATCCTCACGCTCACCTGGTTCTTGGCCGCCGGCAAG
AAGTGGGGCCACGAGGCCATCGAGGCCCACAGCAACTACTTCCACATGGCGGCGTGGGGCGTGCCCGCCCTCAAGACCAT
CGTCATCCTCACCATGAGGAAGGTGGCGGGCGACGAGCTGACGGGCCTGTGCTACGTGGGCAGCATGGACGCGGCCGCCC
TCACCGGCTTCGTGCTCGTCCCCCTGGCCTGCTACCTGGTGGTGGGCACCTCCTTCATCCTGACGGGCTTCGTGGCGCTC
TTCCACATCCGCCGCGTGATGAAGACGGAGGGCACCAACACGGAGAAGCTGGAGAAGCTGATGGTGAAGATCGGCGTGTA
CTCCATCCTGTACACGGTGCCCGCCACCTGCGTGATCGTGTGCTACTTCTACGAGCGCCTCAACATGGACTACTGGCGCT
CCCGCGGCCTGGAGGCCCGCTGCGTCTCGCTGCCGGGCCGGAGGAACGAGGGCTGCTCGCTGGACGCCTCGGTGCCGGCG
GTGGCCGTGTTCATGCTGAAGACCTTCATGTCGCTGGTGGTGGGCATCACCAGCGGCGTGTGGGTGTGGAGCTCCAAGAC
GCTGCAGACCTGGCAGCTGCTGTGCAGCAGGAAGCTGGCGGCAGACCGGACGCCCGGCGGGGGCAGGAAGCCGTGCGGGG
GGGTCACCTGCGGCAGCACGCACTGCCACTACAAGGCCCCCCCCGCCGTGGTCATGCACATGGCCAAGCCGGACCCCCAC
TCGGACAACCCCACGCACGTG

Alignment

ORF - retro_gmor_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.23 %
• Parental protein coverage: 52.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PDQYAWVRRSHSCALQCGYDSGLY-RRGAKVFTDAWMAAWAVMCFLSTTLTVLTFLLDSQRFSYPERPII
          P.....V..S.SCA..C.........R..K.F...WM..W...CF.ST..TVLTFLLD..RF.YPERPII
Retrocopy PEKFQYVEKSQSCAPRCSSAVDVFWSRRDKDFAFVWMTVWSTLCFVSTAFTVLTFLLDPHRFQYPERPII

Parental  FLSMCCNLYSVAYLVRLTLGRERVSCDLEEAAVPVLVQEGLKSTGCAIVFLLLYFFGMASSLWWVILTLT
          FLSMC.N.YSVA...R...G.E...CD.E........QEGL.STGC.IVFL.LY.FGMASS.WWVILTLT
Retrocopy FLSMCYNVYSVAFIIRSVAGAENIACDRENGEL-YIIQEGLESTGCTIVFLILYYFGMASSIWWVILTLT

Parental  WFLAAGLKWGHEAIEMHSSYFHIAAWAIPAVKTIVILIMRLVDADDLTGLCYVGNLQQEALTGFVVAPLA
          WFLAAG.KWGHEAIE.HS.YFH.AAW..PA.KTIVIL.MR.V..D.LTGLCYVG.....ALTGFV..PLA
Retrocopy WFLAAGKKWGHEAIEAHSNYFHMAAWGVPALKTIVILTMRKVAGDELTGLCYVGSMDAAALTGFVLVPLA

Parental  TYLLIGTLFICAGLVALFKIRSNLQKDGAKTDKLERLMVKIGVFSVLYTVPASVVIGCYLYQ---LSHWG
          .YL..GT.FI..G.VALF.IR......G..T.KLE.LMVKIGV.S.LYTVPA..VI.CY.Y.......W.
Retrocopy CYLVVGTSFILTGFVALFHIRRVMKTEGTNTEKLEKLMVKIGVYSILYTVPATCVIVCYFYERLNMDYWR

Parental  EFGSAAR
          ..G..AR
Retrocopy SRGLEAR

Legend:

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

Expression

RNA-Seq

Gadus morhua was not studied using RNA-Seq expression data.

ChIP-Seq

Gadus morhua was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_gmor_8 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_8 was not experimentally validated.

Homology

Retrocopy orthology:

Gadus morhua 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000014266	1 retrocopy	retro_gmor_8 ,
Takifugu rubripes	ENSTRUG00000006345	2 retrocopies	retro_trub_27, retro_trub_45,