RetrogeneDB ID: retro_gmor_6

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: GeneScaffold_2422:127750..128806(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGMOG00000020415
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: kcnj11l
• Ensembl ID: ENSGMOG00000009508
• Aliases: None
• Description: potassium inwardly-rectifying channel, subfamily J, member 11, like [Source:ZFIN;Acc:ZDB-GENE-050222-2]

Sequence

>retro_gmor_6
ATGTTGTCCAGGAAAGGACTCCTTCCAGAGGACTATTTACTGACGCGCCTGTCCGAAGAAGTCCAGCAGCCCAGCAGCAA
GTTCAAGGCGAGCCAGAGGAAGGCTCGGTTCGTCGCCAAGAACGGAACTTGTAATGTGGCCCACACGAACATCCGCGAGC
AGGGCCGCTTCCTTCAGGACGTTTTCACCACCCTCGTGGATTTAAAATGGGTCCACACACTGATCATCTTCACCATGTCG
TACCTTTGCAGTTGGCTGCTTTTTGGGATGATCTGGTGGCTCATTGCCTTCGCGCACGGCGATTTGGATGACACAGGGGA
CGAGTTTATCCCGTGCGTAACGGGCATCCAGTCGTTCTCCTCGGCATTCCTCCTCTCCATAGAAATCCAAGTCACCATCG
GTTTTGGTGGTCGGATGGTCACAGAAGAATGCGTGTCCGCCATAATTATTCTCATCGTCCAAAACATCGTCGGGCTGGTG
ATCAACGCCATAATGCTGGGTTGCATCTTCATGAAAACCGCGCAGGCCAATCGGCGCGCCGAAACCCTGATTTTCAGTAA
ACACGCGGTCATCTCCATCCGAAACAGCAAGCTGTGCTTCATGGTCCGCATCGGGGACCTGAGGAAAAGCATGATCATCA
GCGCCACCGTGCGCATGCAGGTGGTCAAGAAGACGAGCACGAGTGAGGGCGAGGTGGTGCCTCTGGACCAGATCGACATC
CACTTGGACAACCCAATCGGCACGAACGGCCTCTTTCTGGTGTCCCCACTCATCATATGCCACGTGATCGAGAAAGAGAG
TCCTCTATACCAGGTGTCGGCGTCGGATCTGCAGCACGACGACATCGAGGTGATCGTGGTGCTCGAGGGAGTGGTGGAGA
CGACGGGCATCACCACGCAGGCGCGGACGTCGTACGTGTCGGAGGAGATCCTGTGGGGGCAGCGTTTCGTGCCCACAGTC
TCCGAGGAAGAGGGCATGTACGCGGTGGACTACTCCAAATTCGGCCACACCGTGCGGGTGCCGACGCCGTGCTGCAGCGC
AAAGACCTTCGACGAG

Alignment

ORF - retro_gmor_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.92 %
• Parental protein coverage: 79.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLARKGLLPDGFLLTRLAENSAKPC-RARPRPHRARFITKNGSCNVAHKNIREQGRFLQDVFTTMVDLKW
          ML.RKGLLP...LLTRL.E....P..........ARF..KNG.CNVAH.NIREQGRFLQDVFTT.VDLKW
Retrocopy MLSRKGLLPEDYLLTRLSEEVQQPSSKFKASQRKARFVAKNGTCNVAHTNIREQGRFLQDVFTTLVDLKW

Parental  QHSLLIFTSSFLCSWMLFAMAWWLLAFAHGDLEPVGPNGGPPAVPCVTQIHSFTSAFLFSIEVQVTIGFG
          .H.L.IFT.S.LCSW.LF.M.WWL.AFAHGDL.......G....PCVT.I.SF.SAFL.SIE.QVTIGFG
Retrocopy VHTLIIFTMSYLCSWLLFGMIWWLIAFAHGDLDDT----GDEFIPCVTGIQSFSSAFLLSIEIQVTIGFG

Parental  GRMVTEECPLAITVLIVQNILGLIINAVMLGCVFMKTAQANRRAETLIFSRNAVIALRNGRPTFMFRLGD
          GRMVTEEC..AI..LIVQNI.GL.INA.MLGC.FMKTAQANRRAETLIFS..AVI..RN....FM.R.GD
Retrocopy GRMVTEECVSAIIILIVQNIVGLVINAIMLGCIFMKTAQANRRAETLIFSKHAVISIRNSKLCFMVRIGD

Parental  LRKSMIISATVQLQVVRKAVTSEGEVIPVSQMDIQVENPLHSNGIFLVSPLVISHTIQRGSPLYELSAQS
          LRKSMIISATV..QVV.K..TSEGEV.P..Q.DI...NP...NG.FLVSPL.I.H.I...SPLY..SA..
Retrocopy LRKSMIISATVRMQVVKKTSTSEGEVVPLDQIDIHLDNPIGTNGLFLVSPLIICHVIEKESPLYQVSASD

Parental  LASEDLEVIVILEGVVETTGITMQARSSYTPDEILWGRRFVSILSEEDGRYCVDYSKFGNTAPVRMSSLS
          L...D.EVIV.LEGVVETTGIT.QAR.SY...EILWG.RFV...SEE.G.Y.VDYSKFG.T..V.....S
Retrocopy LQHDDIEVIVVLEGVVETTGITTQARTSYVSEEILWGQRFVPTVSEEEGMYAVDYSKFGHTVRVPTPCCS

Parental  AHELD
          A...D
Retrocopy AKTFD

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_6 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_6 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000009508	1 retrocopy	retro_gmor_6 ,
Gadus morhua	ENSGMOG00000012121	1 retrocopy	retro_gmor_1,