Nfib nuclear factor I/B [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nfibprovided by MGI
Official Full Name: nuclear factor I/Bprovided by MGI
Primary source: MGI:MGI:103188
See related: Ensembl:ENSMUSG00000008575 AllianceGenome:MGI:103188
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: CTF; NF1-B; NFI-B; NF-I/B; 6720429L07Rik; E030026I10Rik
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific. Involved in several processes, including lung epithelial cell differentiation; negative regulation of cell population proliferation; and nervous system development. Acts upstream of or within several processes, including animal organ development; positive regulation of transcription by RNA polymerase II; and response to bacterium. Located in cerebellar mossy fiber and nucleus. Is expressed in several structures, including alimentary system; genitourinary system; limb; nervous system; and respiratory system. Orthologous to human NFIB (nuclear factor I B). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in CNS E14 (RPKM 21.2), whole brain E14.5 (RPKM 17.6) and 21 other tissues See more
Orthologs: human all
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Genomic context

Location:: 4 C3; 4 38.4 cM

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (82208410..82424988, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (82290173..82506751, complement)

Chromosome 4 - NC_000070.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Nuclear Factor I A and Nuclear Factor I B Are Jointly Required for Mouse Postnatal Neural Stem Cell Self-Renewal.
Title: Nuclear Factor I A and Nuclear Factor I B Are Jointly Required for Mouse Postnatal Neural Stem Cell Self-Renewal.
Small Cell Lung Cancer Plasticity Enables NFIB-Independent Metastasis.
Title: Small Cell Lung Cancer Plasticity Enables NFIB-Independent Metastasis.
The NFIB/CARM1 partnership is a driver in preclinical models of small cell lung cancer.
Title: The NFIB/CARM1 partnership is a driver in preclinical models of small cell lung cancer.
Nfib promotes chondrocyte proliferation and inhibits differentiation by mildly regulating Sox9 and its downstream genes.
Title: Nfib promotes chondrocyte proliferation and inhibits differentiation by mildly regulating Sox9 and its downstream genes.
NFIA and NFIB function as tumour suppressors in high-grade glioma in mice.
Title: NFIA and NFIB function as tumour suppressors in high-grade glioma in mice.
Expression of NFIA and NFIB within the murine spinal cord.
Title: Expression of NFIA and NFIB within the murine spinal cord.
Histone demethylase KDM4D cooperates with NFIB and MLL1 complex to regulate adipogenic differentiation of C3H10T1/2 mesenchymal stem cells.
Title: Histone demethylase KDM4D cooperates with NFIB and MLL1 complex to regulate adipogenic differentiation of C3H10T1/2 mesenchymal stem cells.
The NFI transcription factors (Nfia, Nfib, and Nfix) are selectively expressed in late retinal progenitor cells and they control bipolar interneuron and Muller glia cell fate specification and promote proliferative quiescence.
Title: Single-Cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification.
Results imply that the long noncoding RNA lnc158 positively modulates the transcription level of nuclear factor-IB mRNA, leading to the enhanced induction of oligodendrocytes.
Title: A novel long noncoding RNA lnc158 promotes the differentiation of mouse neural precursor cells into oligodendrocytes by targeting nuclear factor-IB.
\Nfib hemizygous mice are relatively resistant to hyperoxia compared to wild-type littermates. Nfib hemizygous lungs had significant downregulation of genes involved in redox signaling and inflammatory pathways.
Title: Nfib hemizygous mice are protected from hyperoxic lung injury and death.

Submit: New GeneRIF Correction See all GeneRIFs (32)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (4) 1 citation
Endonuclease-mediated (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AA986530 (e-PCR)
- UniSTS:207630

Nfib (e-PCR), detects polymorphism
- UniSTS:527449

Nfib (e-PCR), detects polymorphism
- UniSTS:515976

D9S2012 (e-PCR)
- UniSTS:82852

RH80854 (e-PCR)
- UniSTS:89539

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
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	ISO Inferred from Sequence Orthology 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 RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription regulator inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA replication	IEA Inferred from Electronic Annotation more info
involved_in anterior commissure morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in brain development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell differentiation involved in salivary gland development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell proliferation in forebrain	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell quiescence	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chondrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in club cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in commissural neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within exit from mitosis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within forebrain development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in gene expression	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within generation of neurons	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glandular epithelial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in glial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glial cell fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glial cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hindbrain development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in lung ciliated cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within lung development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA binding	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of epithelial cell proliferation involved in lung morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of mesenchymal cell proliferation involved in lung development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of miRNA transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of stem cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural precursor cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
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 positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in principal sensory nucleus of trigeminal nerve development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within response to bacterium	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to wounding	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within salivary gland cavitation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of stem cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within tissue homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in type I pneumocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in type II pneumocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cerebellar mossy fiber	IDA Inferred from Direct Assay more info	PubMed
located_in fibrillar center	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear factor 1 B-type

Names: CCAAT-box-binding transcription factor; TGGCA-binding protein; nuclear factor 1/B

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)

NM_001113209.2 → NP_001106680.1 nuclear factor 1 B-type isoform 1

See identical proteins and their annotated locations for NP_001106680.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AA500678, AA510173, AK047576, AL592283, AL773518, AY035852, BC062908, BC096542

Consensus CDS

CCDS51213.1

UniProtKB/Swiss-Prot

P70252, P70253, P70254, P97863, Q9R1G4

UniProtKB/TrEMBL

A2BG77

Related

ENSMUSP00000052863.9, ENSMUST00000050872.15

Conserved Domains (3) summary

pfam00859
Location:209 → 498

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:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain
NM_001113210.2 → NP_001106681.1 nuclear factor 1 B-type isoform 2

See identical proteins and their annotated locations for NP_001106681.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 2, which lacks an internal segment and is shorter, compared to isoform 1.

Source sequence(s)

AA500678, AK047576, AL592283, AL773518, BB626259, BC062908, BC096542

UniProtKB/TrEMBL

A2BG75

Related

ENSMUSP00000102868.2, ENSMUST00000107247.8

Conserved Domains (3) summary

pfam00859
Location:209 → 489

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:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain
NM_001286127.1 → NP_001273056.1 nuclear factor 1 B-type isoform 4

Status: VALIDATED

Description

Transcript Variant: This variant (4) uses an alternate splice site and lacks an alternate exon in the 3' coding region, resulting in a frameshift and an early stop codon, compared to variant 1. It encodes isoform 4, which is shorter and has a distinct C-terminus, compared to isoform 1.

Source sequence(s)

AA500678, AK047576, AL592283, AL773518, AY035852, BC062908, BC096542

UniProtKB/TrEMBL

I7HIP8

Related

ENSMUSP00000102865.3, ENSMUST00000107245.9

Conserved Domains (3) summary

pfam00859
Location:209 → 493

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:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain
NM_001286131.1 → NP_001273060.1 nuclear factor 1 B-type isoform 5

See identical proteins and their annotated locations for NP_001273060.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) lacks two alternate exons in the 3' coding region, compared to variant 1. It encodes isoform 5, which lacks an internal in-frame segment and is shorter, compared to isoform 1.

Source sequence(s)

AA500678, AK047576, AL592283, AL773518, AY035852, BC062908, BC096542, BE862566

UniProtKB/TrEMBL

A2BG76

Related

ENSMUSP00000102866.2, ENSMUST00000107246.2

Conserved Domains (3) summary

cl00055
Location:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain

pfam00859
Location:209 → 416

CTF_NFI; CTF/NF-I family transcription modulation region

pfam10524
Location:9 → 47

NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
NM_008687.6 → NP_032713.3 nuclear factor 1 B-type isoform 3

See identical proteins and their annotated locations for NP_032713.3

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks three alternate exons in the 3' coding region, which results in a frameshift and an early stop codon, compared to variant 1. It encodes isoform 3, which is shorter and has a distinct C-terminus, compared to isoform 1.

Source sequence(s)

AK047576, AK146480, AL592283, AL773518, BC062908, BC096542

Consensus CDS

CCDS38790.1

UniProtKB/TrEMBL

Q6GSP7, Q8C434

Related

ENSMUSP00000067629.3, ENSMUST00000064770.9

Conserved Domains (3) summary

pfam00859
Location:209 → 415

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:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000070.7 Reference GRCm39 C57BL/6J

Range

82208410..82424988 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017320022.3 → XP_017175511.1 nuclear factor 1 B-type isoform X5

UniProtKB/TrEMBL

Q8C434

Conserved Domains (3) summary

pfam00859
Location:209 → 416

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:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain
XM_006537654.3 → XP_006537717.1 nuclear factor 1 B-type isoform X2

UniProtKB/TrEMBL

I7HIP8

Conserved Domains (3) summary

pfam00859
Location:209 → 502

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:69 → 173

MH1; N-terminal Mad Homology 1 (MH1) domain
XM_036163813.1 → XP_036019706.1 nuclear factor 1 B-type isoform X6

UniProtKB/TrEMBL

Q8C434

Conserved Domains (3) summary

pfam10524
Location:2 → 38

NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus

pfam00859
Location:200 → 406

CTF_NFI; CTF/NF-I family transcription modulation region

cl00055
Location:60 → 164

MH1; N-terminal Mad Homology 1 (MH1) domain
XM_030253304.2 → XP_030109164.1 nuclear factor 1 B-type isoform X4

UniProtKB/TrEMBL

A2BG76

Conserved Domains (4) summary

PRK15127
Location:376 → 466

PRK15127; multidrug efflux RND transporter permease subunit AcrB

pfam00859
Location:200 → 407

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:60 → 164

MH1; N-terminal Mad Homology 1 (MH1) domain
XM_036163812.1 → XP_036019705.1 nuclear factor 1 B-type isoform X3

UniProtKB/TrEMBL

I7HIP8

Conserved Domains (3) summary

pfam10524
Location:2 → 38

NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus

pfam00859
Location:200 → 493

CTF_NFI; CTF/NF-I family transcription modulation region

cl00055
Location:60 → 164

MH1; N-terminal Mad Homology 1 (MH1) domain
XM_006537653.5 → XP_006537716.1 nuclear factor 1 B-type isoform X1

UniProtKB/TrEMBL

A2BG77

Conserved Domains (3) summary

pfam00859
Location:200 → 489

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:60 → 164

MH1; N-terminal Mad Homology 1 (MH1) domain