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    ILF2 interleukin enhancer binding factor 2 [ Homo sapiens (human) ]

    Gene ID: 3608, updated on 3-Nov-2024

    Summary

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    Official Symbol
    ILF2provided by HGNC
    Official Full Name
    interleukin enhancer binding factor 2provided by HGNC
    Primary source
    HGNC:HGNC:6037
    See related
    Ensembl:ENSG00000143621 MIM:603181; AllianceGenome:HGNC:6037
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NF45; PRO3063
    Summary
    The protein encoded by this gene is a transcription factor required for T-cell expression of the interleukin 2 gene. It also binds RNA and is an essential component for encapsidation and protein priming of hepatitis B viral polymerase. The encoded 45 kDa protein (NF45, ILF2) forms a complex with the 90 kDa interleukin enhancer-binding factor 3 (NF90, ILF3), and this complex has been shown to affect the redistribution of nuclear mRNA to the cytoplasm, to repair DNA breaks by nonhomologous end joining, and to negatively regulate the microRNA processing pathway. Knockdown of NF45 or NF90 protein retards cell growth, possibly by inhibition of mRNA stabilization. Alternative splicing results in multiple transcript variants. Related pseudogenes have been found on chromosomes 3 and 14. [provided by RefSeq, Dec 2014]
    Expression
    Ubiquitous expression in testis (RPKM 65.5), bone marrow (RPKM 58.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ILF2 in Genome Data Viewer
    Location:
    1q21.3
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (153661788..153670993, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (152799053..152808258, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (153634264..153643469, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene S100 calcium binding protein A13 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:153601055-153601878 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1750 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1342 Neighboring gene S100 calcium binding protein A1 Neighboring gene chromatin target of PRMT1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1751 Neighboring gene SNAP associated protein Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1343 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1752 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1753 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1754 Neighboring gene tRNA-iMet (anticodon CAT) 1-1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:153650401-153651382 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:153651383-153652363 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:153656981-153657482 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:153657483-153657982 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:153659386-153660585 Neighboring gene natriuretic peptide receptor 1 Neighboring gene microRNA 8083

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Integrating trans-omics, cellular experiments and clinical validation to identify ILF2 as a diagnostic serum biomarker and therapeutic target in gastric cancer.
      Title: Integrating trans-omics, cellular experiments and clinical validation to identify ILF2 as a diagnostic serum biomarker and therapeutic target in gastric cancer.
    2. NUSAP1 Binds ILF2 to Modulate R-Loop Accumulation and DNA Damage in Prostate Cancer.
      Title: NUSAP1 Binds ILF2 to Modulate R-Loop Accumulation and DNA Damage in Prostate Cancer.
    3. Serine hydroxymethyltransferase 2 (SHMT2) potentiates the aggressive process of oral squamous cell carcinoma by binding to interleukin enhancer-binding factor 2 (ILF2).
      Title: Serine hydroxymethyltransferase 2 (SHMT2) potentiates the aggressive process of oral squamous cell carcinoma by binding to interleukin enhancer-binding factor 2 (ILF2).
    4. ILF2 enhances the DNA cytosine deaminase activity of tumor mutator APOBEC3B in multiple myeloma cells.
      Title: ILF2 enhances the DNA cytosine deaminase activity of tumor mutator APOBEC3B in multiple myeloma cells.
    5. Interleukin Enhancer Binding Factor 2 Regulates Cell Viability and Apoptosis of Human Brain Vascular Smooth Muscle Cells.
      Title: Interleukin Enhancer Binding Factor 2 Regulates Cell Viability and Apoptosis of Human Brain Vascular Smooth Muscle Cells.
    6. CRNDE-h transcript/miR-136-5p axis regulates interleukin enhancer binding factor 2 expression to promote hepatocellular carcinoma cell proliferation.
      Title: CRNDE-h transcript/miR-136-5p axis regulates interleukin enhancer binding factor 2 expression to promote hepatocellular carcinoma cell proliferation.
    7. Deletion of interleukin enhancer binding factor 2 (ILF2) resulted in defective biliary development and bile flow blockage.
      Title: Deletion of interleukin enhancer binding factor 2 (ILF2) resulted in defective biliary development and bile flow blockage.
    8. NF45 and NF90 Regulate Mitotic Gene Expression by Competing with Staufen-Mediated mRNA Decay.
      Title: NF45 and NF90 Regulate Mitotic Gene Expression by Competing with Staufen-Mediated mRNA Decay.
    9. Cereblon Promotes the Ubiquitination and Proteasomal Degradation of Interleukin Enhancer-Binding Factor 2.
      Title: Cereblon Promotes the Ubiquitination and Proteasomal Degradation of Interleukin Enhancer-Binding Factor 2.
    10. Circular RNA 406961 interacts with ILF2 to regulate PM2.5-induced inflammatory responses in human bronchial epithelial cells via activation of STAT3/JNK pathways.
      Title: Circular RNA 406961 interacts with ILF2 to regulate PM(2.5)-induced inflammatory responses in human bronchial epithelial cells via activation of STAT3/JNK pathways.
    Submit: New GeneRIF Correction See all GeneRIFs (40)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    The CCND1 c.870G>A polymorphism is a risk factor for t(11;14)(q13;q32) multiple myeloma.
    EBI GWAS Catalog

    Variation

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    See Variation Viewer (GRCh37.p13)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify interleukin enhancer binding factor 2 (ILF2, NF45), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify interleukin enhancer binding factor 2 (ILF2, NF45), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify interleukin enhancer binding factor 2 (ILF2, NF45), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify interleukin enhancer binding factor 2 (ILF2, NF45), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Rev rev HIV-1 Rev interacting protein, interleukin enhancer binding factor 2 (ILF2), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with ILF2 is increased by RRE PubMed
    Tat tat Interaction of HIV-1 Tat with ILF2 in T-cells is identified by a proteomic strategy based on affinity chromatography coupled with mass spectrometry PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC8391

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding HDA PubMed 
    enables double-stranded RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables double-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in extracellular region HDA PubMed 
    located_in extracellular region TAS
    Traceable Author Statement
    more info
    		  
    located_in ficolin-1-rich granule lumen TAS
    Traceable Author Statement
    more info
    		  
    located_in membrane HDA PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in specific granule lumen TAS
    Traceable Author Statement
    more info
    		  
    located_in tertiary granule lumen TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    interleukin enhancer-binding factor 2
    Names
    interleukin enhancer binding factor 2, 45kD
    interleukin enhancer binding factor 2, 45kDa
    nuclear factor of activated T-cells, 45-kDa

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001267809.2 → NP_001254738.1  interleukin enhancer-binding factor 2 isoform 2

      See identical proteins and their annotated locations for NP_001254738.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in its 5' UTR and uses an in-frame downstream start codon, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus, compared to isoform 1.
      Source sequence(s)
      AK223326, AK302214, BC000382, BX450311, DC412988
      Consensus CDS
      CCDS72919.1
      UniProtKB/TrEMBL
      B4DY09, F4ZW63, Q53FG3
      Related
      ENSP00000482909.1, ENST00000615950.4
      Conserved Domains (1) summary
      smart00572
      Location:60 → 300
      DZF; domain in DSRM or ZnF_C2H2 domain containing proteins

    2. NM_004515.4 → NP_004506.2  interleukin enhancer-binding factor 2 isoform 1

      See identical proteins and their annotated locations for NP_004506.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK223326, BC000382, BX450311, DC412988
      Consensus CDS
      CCDS1050.1
      UniProtKB/Swiss-Prot
      A6NDB0, B2R8G7, Q12905, Q5SR10, Q5SR11, Q7L7R3, Q9BWD4, Q9P1N0
      UniProtKB/TrEMBL
      F4ZW62, F4ZW63, Q53FG3
      Related
      ENSP00000355011.4, ENST00000361891.9
      Conserved Domains (1) summary
      smart00572
      Location:98 → 338
      DZF; domain in DSRM or ZnF_C2H2 domain containing proteins

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      153661788..153670993 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      152799053..152808258 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q12905.2 GenPept UniProtKB/Swiss-Prot:Q12905

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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