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

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: mouse all
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Genomic context

Location:: 19p13.3

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (3359630..3469217)
RS_2023_10	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_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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.
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.
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.
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.
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.
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 EBI GWAS CatalogPubMed
Hundreds of variants clustered in genomic loci and biological pathways affect human height. EBI GWAS Catalog EBI GWAS CatalogPubMed

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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

WI-12079 (e-PCR)
- UniSTS:15156

RH47688 (e-PCR)
- UniSTS:41852

A008X33 (e-PCR)
- UniSTS:11659

SHGC-147406 (e-PCR)
- UniSTS:175794

A009K36 (e-PCR)
- UniSTS:64435

RH67057 (e-PCR)
- UniSTS:84684

G32622 (e-PCR)
- UniSTS:117205

G32369 (e-PCR)
- UniSTS:116958

RH70943 (e-PCR)
- UniSTS:18913

RH36034 (e-PCR)
- UniSTS:47850

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
part_of 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

NG_030333.2 RefSeqGene

Range

12021..114655

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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
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, ENST00000341919.7

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
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, ENST00000589123.5

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