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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
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