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

Gene ID: 4782, updated on 23-Sep-2022

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
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Genomic context

See NFIC in Genome Data Viewer
Location:
19p13.3
Exon count:
13
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (3359630..3469217)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (3337764..3447373)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (3359628..3469215)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene nicalin Neighboring gene CUGBP Elav-like family member 5 Neighboring gene uncharacterized LOC105372244 Neighboring gene skeletal muscle cis-regulatory module in NFIC intron Neighboring gene uncharacterized LOC105372246 Neighboring gene small integral membrane protein 24 Neighboring gene small integral membrane protein 44

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

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

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC20153

Gene Ontology Provided by GOA

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
PubMed 

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_001245002.2NP_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
    P08651, Q9UPK1
    UniProtKB/TrEMBL
    B7Z4T6
    Related
    ENSP00000396843.2, ENST00000443272.3
    Conserved Domains (3) summary
    pfam00859
    Location:217507
    CTF_NFI; CTF/NF-I family transcription modulation region
    pfam10524
    Location:1047
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    cl00055
    Location:68169
    MH1; N-terminal Mad Homology 1 (MH1) domain
  2. NM_001245004.2NP_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/Swiss-Prot
    P08651
    Related
    ENSP00000466647.1, ENST00000590282.5
    Conserved Domains (3) summary
    pfam00859
    Location:217424
    CTF_NFI; CTF/NF-I family transcription modulation region
    pfam10524
    Location:1047
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    cl00055
    Location:68169
    MH1; N-terminal Mad Homology 1 (MH1) domain
  3. NM_001245005.2NP_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/Swiss-Prot
    P08651
    Related
    ENSP00000378543.2, ENST00000395111.7
    Conserved Domains (3) summary
    pfam10524
    Location:238
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    pfam00859
    Location:208415
    CTF_NFI; CTF/NF-I family transcription modulation region
    cl00055
    Location:59160
    MH1; N-terminal Mad Homology 1 (MH1) domain
  4. NM_005597.4NP_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/Swiss-Prot
    P08651
    Related
    ENSP00000342194.2, ENST00000341919.7
    Conserved Domains (3) summary
    pfam10524
    Location:1047
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    pfam00859
    Location:217423
    CTF_NFI; CTF/NF-I family transcription modulation region
    cl00055
    Location:68169
    MH1; N-terminal Mad Homology 1 (MH1) domain
  5. NM_205843.3NP_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/Swiss-Prot
    P08651
    Related
    ENSP00000465655.1, ENST00000589123.5
    Conserved Domains (3) summary
    pfam00859
    Location:208498
    CTF_NFI; CTF/NF-I family transcription modulation region
    pfam10524
    Location:238
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    cl00055
    Location:59160
    MH1; N-terminal Mad Homology 1 (MH1) domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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)

mRNA and Protein(s)

  1. XM_006722759.3XP_006722822.2  nuclear factor 1 C-type isoform X2

  2. XM_017026834.2XP_016882323.1  nuclear factor 1 C-type isoform X1

  3. XM_017026835.2XP_016882324.1  nuclear factor 1 C-type isoform X3

    UniProtKB/Swiss-Prot
    P08651
    Related
    ENSP00000465177.1, ENST00000586919.5
    Conserved Domains (3) summary
    pfam00859
    Location:217424
    CTF_NFI; CTF/NF-I family transcription modulation region
    pfam10524
    Location:1047
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    cl00055
    Location:68169
    MH1; N-terminal Mad Homology 1 (MH1) domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    3337764..3447373
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)