RetrogeneDB ID: retro_gmor_25

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: GeneScaffold_4560:7645..8080(-)
• 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_25
ATGGAAAATTACGAAGTTTTGAAGGTTCTTGGCAGTGGTGGATTTGGAGAGGTACTAAAATGTAGAAGCCTTCATTCAGG
GAACATCTGAATAAAAAGGTTTTTTCCCACGGAAGACACGCACCTCATCTTACAGCGGGAACTCGCGCCTCTGTTGGAGT
TGAAGCACGACAATGTCATCAAATTGCTGACGGCGTTCCTCCACAGGGGGCTCATGCATGCCGTCTTTGAGCTCCTCGAC
CACAACATTGTTAACGAGGTAGAGATGAAAGGCTGCGGTCTGGAGAGTCCGACGATCAAGTTATACAGTTTCCAGATCCT
CAGCGCAGTGGACTTCATCCACAGCCACAATATAATGCATCGAGACATCAAGCCAGATAACCTGCTGGTCTCGCACTCGG
GAGTCCTCAAGTTGGCCGACTTTGGCTCCAGCCGC

Alignment

ORF - retro_gmor_25 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.67 %
• Parental protein coverage: 50.68 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MENYEVLEHLGSGGFGEVLKCRSLHSGNFFAMKKFSTLVETHLVFQRELSQQSMLKHDNVVRLLTAFIHS
          MENYEVL..LGSGGFGEVLKCRSLHSGN....K.F.....THL..QREL.....LKHDNV..LLTAF.H.
Retrocopy MENYEVLKVLGSGGFGEVLKCRSLHSGNI*-IKRFFPTEDTHLILQRELAPLLELKHDNVIKLLTAFLHR

Parental  ERMYAIFELLDQSVFDEVKKKVQVSGCGLERLKIKKYSFQILRAVDFIHSHNIMHRDIKPDNLLVSHSGV
          ..M.A.FELLD.....E....V...GCGLE...IK.YSFQIL.AVDFIHSHNIMHRDIKPDNLLVSHSGV
Retrocopy GLMHAVFELLDHNIVNE----VEMKGCGLESPTIKLYSFQILSAVDFIHSHNIMHRDIKPDNLLVSHSGV

Parental  VKLADFGDAR
          .KLADFG..R
Retrocopy LKLADFGSSR

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_25 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_25 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,