RetrogeneDB ID: retro_gmor_33

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: scaffold06149:60..939(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGMOG00000015957
• Aliases: None
• Description: None

Sequence

>retro_gmor_33
ATGGAAAACTACGAAGTTTTGGAGCGTCTTGGCAGTGGTGGATCTGCAGAAGTACGAAGATGCAGAAGCCTTCGTTCAGG
GAAATTTTTCGCCATGAAAAGGTTTTTTGCCCCGGATGAAACGCATCTCATCTTTCAGCGGGAACTCGCTCCTCTGTCAG
TGTTGAAGCACGACAATGTCATCCGACTGCTGACTGCGTTCCTCCACGGGGGGATCATGCATGCTATCTTTGAGCTTCTC
GAACACAGCCTTCTTGACGAGCTGAAGATAAAAGGCTGCGGTCTGGAGAGTCTGACGATCAAGAAATACAGTTTCCAGAT
CCTCAGAGCAGTAGACTTCATCCACAGCCGCAATATAATGCATCTAGACATCAAGCCAGATAACCTGCTGGTCTCGTGCT
CTGGAGTCCTCAAGTTGGCCGACTTTGGCTCCAGCCGCGCGTCTAACCATGCTGCCGAACCGCTCACACGGGATGCGGGC
GCAATGTTGTTCAGCGCACCAGAGATGCTGTTGATGGACCCTGACTACAACAAGCCTGTTGATGTGTGGGCCGTTGGGTG
CACCTTGGTGTTCATGGCCACGGGAAACTACTTCCTGAATGGCGAAAGATTCCTGGAACACATCAAGATGATTATAACCA
AAGTGGGACCTCTGACTGCCCTCCAGGAGCAGCAATATTTTAATAATGTGAAATACGCCACCGATTTTGGGGCACTGCCT
GTGGTGCATCCCACCACCGACCTGAAGGAGAAGTACGGCATCTCTGACCCCCTGCTGGCTCAGCTGGTGGAGATGTGTCT
GCAGATGGACCCGGTGGACAGGTGGCGCTGCTCTGCGCTGCTGAGACACCCCTACTACACCCAAGATCATTTCCATGAG

Alignment

ORF - retro_gmor_33 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.92 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MENYEVLEHLGSGGFGEVLKCRSLHSGNFFAMKKFSTLVETHLVFQRELSQQSMLKHDNVVRLLTAFIHS
          MENYEVLE.LGSGG..EV..CRSL.SG.FFAMK.F....ETHL.FQREL...S.LKHDNV.RLLTAF.H.
Retrocopy MENYEVLERLGSGGSAEVRRCRSLRSGKFFAMKRFFAPDETHLIFQRELAPLSVLKHDNVIRLLTAFLHG

Parental  ERMYAIFELLDQSVFDEVKKKVQVSGCGLERLKIKKYSFQILRAVDFIHSHNIMHRDIKPDNLLVSHSGV
          ..M.AIFELL..S..DE.K......GCGLE.L.IKKYSFQILRAVDFIHS.NIMH.DIKPDNLLVS.SGV
Retrocopy GIMHAIFELLEHSLLDELK----IKGCGLESLTIKKYSFQILRAVDFIHSRNIMHLDIKPDNLLVSCSGV

Parental  VKLADFGDARATIDAAEPLTRDAGTKEFSAPEMLVMDPEYNKPVDVWAVGCTLMFMASGNYFPVPTGKKF
          .KLADFG..RA...AAEPLTRDAG...FSAPEML.MDP.YNKPVDVWAVGCTL.FMA.GNYF....G..F
Retrocopy LKLADFGSSRASNHAAEPLTRDAGAMLFSAPEMLLMDPDYNKPVDVWAVGCTLVFMATGNYF--LNGERF

Parental  LEHIKMIITKVGPLTAIQEQQYFNNVKFARELGALPVGLPPTNLMEKYGLSDPLLAQLVEACLQMDPVDR
          LEHIKMIITKVGPLTA.QEQQYFNNVK.A...GALPV..P.T.L.EKYG.SDPLLAQLVE.CLQMDPVDR
Retrocopy LEHIKMIITKVGPLTALQEQQYFNNVKYATDFGALPVVHPTTDLKEKYGISDPLLAQLVEMCLQMDPVDR

Parental  WSCSALLRHPFYTQDHFHE
          W.CSALLRHP.YTQDHFHE
Retrocopy WRCSALLRHPYYTQDHFHE

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_33 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_33 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001010	1 retrocopy	retro_cfam_630,
Gadus morhua	ENSGMOG00000015957	3 retrocopies	retro_gmor_25, retro_gmor_33 , retro_gmor_34,