U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

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

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

    Summary

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    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

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    BioGRID CRISPR Screen Phenotypes (34 hits/1290 screens)

    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

    HIV-1 interactions

    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

    Interactions

    General gene information

    Clone Names

    • MGC20153

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in chromatin  
    located_in fibrillar center  
    located_in nucleoplasm  
    is_active_in nucleus  

    General protein information

    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)

    NEW Try the new Transcript table

    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)
    External link. Please review our privacy policy.