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    LOC115173310 nuclear factor NF-kappa-B p105 subunit-like [ Salmo trutta (river trout) ]

    Gene ID: 115173310, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC115173310
    Gene description
    nuclear factor NF-kappa-B p105 subunit-like
    See related
    Ensembl:ENSSTUG00000031620
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Salmo trutta
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii; Salmoniformes; Salmonidae; Salmoninae; Salmo
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    Genomic context

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    See LOC115173310 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    100 current fSalTru1.1 (GCF_901001165.1) 3 NC_042959.1 (32700459..32739356)

    Chromosome 3 - NC_042959.1Genomic Context describing neighboring genes Neighboring gene tubulin beta-4B chain-like Neighboring gene diacylglycerol kinase theta-like Neighboring gene ubiquitin-conjugating enzyme E2 D2-like Neighboring gene uncharacterized LOC115173357

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_042959.1 Chromosome 3 Reference fSalTru1.1 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in cellular response to stress IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in non-canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in response to cytokine IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    nuclear factor NF-kappa-B p105 subunit-like

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Salmo trutta Annotation Release 100 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference fSalTru1.1 Primary Assembly

    Genomic

    1. NC_042959.1 Reference fSalTru1.1 Primary Assembly

      Range
      32700459..32739356
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_029731300.1 → XP_029587160.1  nuclear factor NF-kappa-B p105 subunit-like isoform X1

      UniProtKB/TrEMBL
      A0A674BSL5

    2. XM_029731308.1 → XP_029587168.1  nuclear factor NF-kappa-B p105 subunit-like isoform X1

      UniProtKB/TrEMBL
      A0A674BSL5

    3. XM_029731315.1 → XP_029587175.1  nuclear factor NF-kappa-B p105 subunit-like isoform X2

      UniProtKB/TrEMBL
      A0A674BSL5
      Conserved Domains (6) summary
      PTZ00322
      Location:683 → 766
      PTZ00322; 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional
      COG0666
      Location:504 → 703
      ANKYR; Ankyrin repeat [Signal transduction mechanisms]
      cd01177
      Location:248 → 349
      IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...
      sd00045
      Location:648 → 674
      ANK; ANK repeat [structural motif]
      cl08275
      Location:40 → 241
      RHD-n; N-terminal sub-domain of the Rel homology domain (RHD)
      cl14633
      Location:813 → 884
      DD; Death Domain Superfamily of protein-protein interaction domains

    4. XM_029731321.1 → XP_029587181.1  nuclear factor NF-kappa-B p105 subunit-like isoform X3

      UniProtKB/TrEMBL
      A0A674BSL5
      Related
      ENSSTUP00000074202.1, ENSSTUT00000078839.1
    Nucleotide Protein
    Heading Accession and Version

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