RetrogeneDB ID: retro_gmor_26

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: GeneScaffold_740:23356..23830(+)
• Located in intron of: ENSGMOG00000003964

Retrocopy information

• Ensembl ID: ENSGMOG00000004007
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGMOG00000003983
• Aliases: None
• Description: None

Sequence

>retro_gmor_26
CTGCAGAGGCTGATCCAGGAGCAGGCCCAGCAGCTAAAGGCTCTGAAGGAGAGCACATCGACCGCTGTGCCCCGGGTGGC
CTTCACCGCCGGGCTGGGCCACTCCATCGGGCCCGTCACCATTAAAATGCCGGTCAAGTACCAGGTGATCATCTCCAACA
TGGGCAACGGCTACAACCCGGCCACGGGCATCTTCACCGCCCGGGTGTCCGGCATGTACTACTTCAGCTACACCATGTAC
AACAACAATAGGGGTTCAACGCCCAACTCGGAGATGTCACTGATGAAGAATGGCCAGCTGATGGCGTACACCTCGGACAT
AGTGGGGAACGACTTTCAGAACAGTGCCACCAACGCTGCGGTGCTGCGGCTGGAGGCCGGAGACAACGTCTACACCGAGC
TCTACGCCAACCGCCGGATATATGACGATGGCGCCAACTACAACACCTTTAGCGGCTTCCTGCTCTTCCCTCTG

Alignment

ORF - retro_gmor_26 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.42 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LQRLTQELAQQLQALKESTSAAQPRVAFSTGLGLPLGPLHIDTTVRYLRIFSNMGNGYNPATGIFTARVS
          LQRL.QE.AQQL.ALKESTS.A.PRVAF..GLG...GP..I...V.Y..I.SNMGNGYNPATGIFTARVS
Retrocopy LQRLIQEQAQQLKALKESTSTAVPRVAFTAGLGHSIGPVTIKMPVKYQVIISNMGNGYNPATGIFTARVS

Parental  GMYYFRYTMHNNNPQS--NSVMSLMKNSQRMVSTWDTSGSDDNDTATNAAVLQLEEGDNVYTRLYANRQI
          GMYYF.YTM.NNN..S..NS.MSLMKN.Q.M..T.D..G.D....ATNAAVL.LE.GDNVYT.LYANR.I
Retrocopy GMYYFSYTMYNNNRGSTPNSEMSLMKNGQLMAYTSDIVGNDFQNSATNAAVLRLEAGDNVYTELYANRRI

Parental  YDDGANYNTFSGFLLFPL
          YDDGANYNTFSGFLLFPL
Retrocopy YDDGANYNTFSGFLLFPL

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_26 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_26 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 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000003983	3 retrocopies	retro_gmor_22, retro_gmor_26 , retro_gmor_32,