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    NFIC nuclear factor I C [ Homo sapiens (human) ]

    Gene ID: 4782, updated on 10-Dec-2024

    Summary

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    Official Symbol
    NFICprovided by HGNC
    Official Full Name
    nuclear factor I Cprovided by HGNC
    Primary source
    HGNC:HGNC:7786
    See related
    Ensembl:ENSG00000141905 MIM:600729; AllianceGenome:HGNC:7786
    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
    CTF; NFI; CTF5; NF-I
    Summary
    The protein encoded by this gene belongs to the CTF/NF-I family. These are dimeric DNA-binding proteins, and function as cellular transcription factors and as replication factors for adenovirus DNA replication. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Oct 2011]
    Expression
    Ubiquitous expression in fat (RPKM 22.7), ovary (RPKM 18.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See NFIC in Genome Data Viewer
    Location:
    19p13.3
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (3359630..3469217)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (3337764..3447373)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (3359628..3469215)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9832 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3189343-3189846 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3189847-3190350 Neighboring gene nicalin Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9833 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3227850-3228390 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3228391-3228930 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3229472-3230011 Neighboring gene CUGBP Elav-like family member 5 Neighboring gene MPRA-validated peak3244 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9834 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9835 Neighboring gene uncharacterized LOC105372244 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:3301113-3301307 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9836 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9837 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9838 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13732 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9839 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9840 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9842 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9841 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9843 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13733 Neighboring gene skeletal muscle cis-regulatory module in NFIC intron Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3389688-3390265 Neighboring gene Sharpr-MPRA regulatory region 10296 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3434103-3434880 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3434881-3435658 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3445307-3445848 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9844 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3462537-3463072 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3463073-3463608 Neighboring gene MPRA-validated peak3246 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3465190-3465690 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3465691-3466191 Neighboring gene Sharpr-MPRA regulatory region 13615 Neighboring gene uncharacterized LOC105372246 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3483217-3483755 Neighboring gene small integral membrane protein 24 Neighboring gene small integral membrane protein 44

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A family of human CCAAT-box-binding proteins active in transcription and DNA replication: cloning and expression of multiple cDNAs. Santoro C, et al. Nature, 1988 Jul 21. PMID 3398920
    2. Nuclear Factor I-C promotes proliferation and differentiation of apical papilla-derived human stem cells in vitro. Zhang J, et al. Exp Cell Res, 2015 Mar 15. PMID 25668322
    3. Calcineurin regulates nuclear factor I dephosphorylation and activity in malignant glioma cell lines. Brun M, et al. J Biol Chem, 2013 Aug 16. PMID 23839947, Free PMC Article
    4. Tissue- and cell-specific alternative splicing of NFIC. Lamani E, et al. Cells Tissues Organs, 2009. PMID 18765927, Free PMC Article
    5. Transcriptional regulation of the human alpha6 integrin gene by the transcription factor NFI during corneal wound healing. Gaudreault M, et al. Invest Ophthalmol Vis Sci, 2008 Sep. PMID 18421093

    See all (117) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. rs822336 binding to C/EBPbeta and NFIC modulates induction of PD-L1 expression and predicts anti-PD-1/PD-L1 therapy in advanced NSCLC.
      Title: rs822336 binding to C/EBPβ and NFIC modulates induction of PD-L1 expression and predicts anti-PD-1/PD-L1 therapy in advanced NSCLC.
    2. Activation of CHPF by transcription factor NFIC promotes NLRP3 activation during the progression of colorectal cancer.
      Title: Activation of CHPF by transcription factor NFIC promotes NLRP3 activation during the progression of colorectal cancer.
    3. Adipose-derived stem cell exosome NFIC improves diabetic foot ulcers by regulating miR-204-3p/HIPK2.
      Title: Adipose-derived stem cell exosome NFIC improves diabetic foot ulcers by regulating miR-204-3p/HIPK2.
    4. NFIC regulates ribosomal biology and ER stress in pancreatic acinar cells and restrains PDAC initiation.
      Title: NFIC regulates ribosomal biology and ER stress in pancreatic acinar cells and restrains PDAC initiation.
    5. Nuclear factor I-C overexpression promotes monocytic development and cell survival in acute myeloid leukemia.
      Title: Nuclear factor I-C overexpression promotes monocytic development and cell survival in acute myeloid leukemia.
    6. NFIC1 inhibits the migration and invasion of MDA-MB-231 cells through S100A2-mediated inactivation of MEK/ERK pathway.
      Title: NFIC1 inhibits the migration and invasion of MDA-MB-231 cells through S100A2-mediated inactivation of MEK/ERK pathway.
    7. Bioinformatics and Experimental Analyses Reveal NFIC as an Upstream Transcriptional Regulator for Ischemic Cardiomyopathy.
      Title: Bioinformatics and Experimental Analyses Reveal NFIC as an Upstream Transcriptional Regulator for Ischemic Cardiomyopathy.
    8. Association of miR-9-5p and NFIC in the progression of gastric cancer.
      Title: Association of miR-9-5p and NFIC in the progression of gastric cancer.
    9. Insulin-like growth factor 2 mRNA-binding protein 2-regulated alternative splicing of nuclear factor 1 C-type causes excessive granulosa cell proliferation in polycystic ovary syndrome.
      Title: Insulin-like growth factor 2 mRNA-binding protein 2-regulated alternative splicing of nuclear factor 1 C-type causes excessive granulosa cell proliferation in polycystic ovary syndrome.
    10. Transcription factor NFIC functions as a tumor suppressor in lung squamous cell carcinoma progression by modulating lncRNA CASC2.
      Title: Transcription factor NFIC functions as a tumor suppressor in lung squamous cell carcinoma progression by modulating lncRNA CASC2.
    Submit: New GeneRIF Correction See all GeneRIFs (35)

    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
    Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
    EBI GWAS Catalog
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat HIV-1 Tat synergizes with CTF to activate transcription and enhance transcript elongation and exon skipping PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC20153

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
    Inferred from Sequence Alignment
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sequence-specific double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription by RNA polymerase II TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromatin ISA
    Inferred from Sequence Alignment
    more info
    		  
    located_in fibrillar center IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    nuclear factor 1 C-type
    Names
    CCAAT-box-binding transcription factor
    NF-I/C
    NF1-C
    TGGCA-binding protein
    nuclear factor I/C (CCAAT-binding transcription factor)

    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.

    Genomic

    1. NG_030333.2 RefSeqGene

      Range
      12021..114655
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001245002.2 → NP_001231931.1  nuclear factor 1 C-type isoform 1

      See identical proteins and their annotated locations for NP_001231931.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC005551, AK289885, AK297825, BC012120, BU727954, CB053896, CK431049, KF456476
      Consensus CDS
      CCDS59330.1
      UniProtKB/Swiss-Prot
      A8K1H0, B7Z4U5, B7Z9C3, K7EMU1, P08651, P08652, Q14932, Q9UPJ3, Q9UPJ9, Q9UPK0, Q9UPK1
      UniProtKB/TrEMBL
      B7Z4T6
      Related
      ENSP00000396843.2, ENST00000443272.3
      Conserved Domains (3) summary
      pfam00859
      Location:217 → 507
      CTF_NFI; CTF/NF-I family transcription modulation region
      pfam10524
      Location:10 → 47
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      cl00055
      Location:68 → 169
      MH1; N-terminal Mad Homology 1 (MH1) domain

    2. NM_001245004.2 → NP_001231933.1  nuclear factor 1 C-type isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an exon in the 3' coding region compared to variant 1. This results in a frame-shift, and a shorter isoform (3) with a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC005551, AK289885, BC012120, BU727954, CB053896, CK431049, KF456476
      Consensus CDS
      CCDS59331.1
      UniProtKB/TrEMBL
      B7Z4T6
      Related
      ENSP00000466647.1, ENST00000590282.5
      Conserved Domains (3) summary
      pfam00859
      Location:217 → 424
      CTF_NFI; CTF/NF-I family transcription modulation region
      pfam10524
      Location:10 → 47
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      cl00055
      Location:68 → 169
      MH1; N-terminal Mad Homology 1 (MH1) domain

    3. NM_001245005.2 → NP_001231934.1  nuclear factor 1 C-type isoform 4

      See identical proteins and their annotated locations for NP_001231934.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) contains an alternate 5' terminal exon, and lacks an exon in the 3' coding region (causing a frame-shift) compared to variant 1. This results in translation initiation from an alternate start codon, and a shorter isoform (4) with distinct N- and C- termini compared to isoform 1.
      Source sequence(s)
      AC005551, AK289885, BP279194, BU727954, CB053896, CK431049, KF456476
      Consensus CDS
      CCDS58640.1
      UniProtKB/TrEMBL
      Q6FI30
      Related
      ENSP00000378543.2, ENST00000395111.7
      Conserved Domains (3) summary
      pfam10524
      Location:2 → 38
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:208 → 415
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:59 → 160
      MH1; N-terminal Mad Homology 1 (MH1) domain

    4. NM_005597.4 → NP_005588.2  nuclear factor 1 C-type isoform 5

      See identical proteins and their annotated locations for NP_005588.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks two consecutive in-frame coding exons compared to variant 1. This results in a shorter isoform (5) missing an internal protein segment compared to isoform 1.
      Source sequence(s)
      AC005551, AK289885, BC012120, BU727954, CB053896, CK431049, KF456476
      Consensus CDS
      CCDS12107.1
      UniProtKB/TrEMBL
      B7Z4T6
      Related
      ENSP00000342194.2, ENST00000341919.8
      Conserved Domains (3) summary
      pfam10524
      Location:10 → 47
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:217 → 423
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:68 → 169
      MH1; N-terminal Mad Homology 1 (MH1) domain

    5. NM_205843.3 → NP_995315.1  nuclear factor 1 C-type isoform 2

      See identical proteins and their annotated locations for NP_995315.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon compared to variant 1. This results in translation initiation from an alternate start codon, and a shorter isoform (2) with a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AC005551, AK289885, BP279194, BU727954, CB053896, CK431049, KF456476
      Consensus CDS
      CCDS45914.1
      UniProtKB/TrEMBL
      Q6FI30
      Related
      ENSP00000465655.1, ENST00000589123.6
      Conserved Domains (3) summary
      pfam00859
      Location:208 → 498
      CTF_NFI; CTF/NF-I family transcription modulation region
      pfam10524
      Location:2 → 38
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      cl00055
      Location:59 → 160
      MH1; N-terminal Mad Homology 1 (MH1) domain

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      3359630..3469217
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      3337764..3447373
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P08651.2 GenPept UniProtKB/Swiss-Prot:P08651

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
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