RetrogeneDB ID: retro_gmor_35

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: scaffold06976:9122..9623(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGMOG00000012261
• Aliases: None
• Description: None

Sequence

>retro_gmor_35
GTCTATGGCGCAATTGATGGGTCGCATATCCCAATTCTTCCACCCCAGGAAGGATACAGAGACTACATGAACAGAAAGTG
CTGGGCCTCTGTCGTCCTACAAGCTGTGGTGGATGACAGAGGCTTGTTCCGAAACATTTTTGTCGGAATCCCAGGGAGCA
CACACGACGCAGCTGTATTTAGACAGTCCAGCCTGTACTGCAATCCGGCGCTGCATCCCCAAGCCAGTTTGAATTTAGAG
GGTGTAGACATCCCATTGGTAATTGCAGGTGACCCCGCGTACCCCCTCCTTCCCTGGCTGATGAAAGCCTACCCTGGCCC
ACATCTTACACCAGCACAGGAAGCATTTAACCAACATCTTAATTCAATTCGTGTTGCTGTGGAGCACAGCTTTGGCCGCC
TGAAAGGTAGATGGAGAGTCTTGGCAAAAAGAAGTGACATACACCACAGTTTCATCCCTACCGTTGTTTCAGCATGTTGT
GTACTTCACAATATATGTGAA

Alignment

ORF - retro_gmor_35 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.38 %
• Parental protein coverage: 53.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IIGCIDGTHIPVLPPSDGYQEFANCEGWPSYVLQAVVDDMYRFWNINCKMPGWTYDDNVLRQSTLFNQAH
          ..G.IDG.HIP.LPP..GY....N...W.S.VLQAVVDD...F.NI....PG.T.D..V.RQS.L.....
Retrocopy VYGAIDGSHIPILPPQEGYRDYMNRKCWASVVLQAVVDDRGLFRNIFVGIPGSTHDAAVFRQSSLYCNPA

Parental  LLPKEPREINGVPINHFLLGDPAYPLMDWLIKGYAHSPNITPEQESFNAYLSSARTTAETAFERLKSRWR
          L.P.......GV.I.....GDPAYPL..WL.K.Y...P..TP.QE.FN..L.S.R...E..F.RLK.RWR
Retrocopy LHPQASLNLEGVDIPLVIAGDPAYPLLPWLMKAYP-GPHLTPAQEAFNQHLNSIRVAVEHSFGRLKGRWR

Parental  VLLKRSDCHFTFTPHVVGACCALHNFCE
          VL.KRSD.H..F.P.VV.ACC.LHN.CE
Retrocopy VLAKRSDIHHSFIPTVVSACCVLHNICE

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_35 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_35 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000009026	1 retrocopy	retro_gmor_19,
Gadus morhua	ENSGMOG00000012106	1 retrocopy	retro_gmor_30,
Gadus morhua	ENSGMOG00000012261	1 retrocopy	retro_gmor_35 ,