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

Gene ID: 18028, updated on 31-Jan-2023

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
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Genomic context

See Nfib in Genome Data Viewer
Location:
4 C3; 4 38.4 cM
Exon count:
13
Annotation release Status Assembly Chr Location
109 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_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 46886 Neighboring gene predicted gene 11264 Neighboring gene predicted gene 5860 Neighboring gene RIKEN cDNA 2310067E19 gene Neighboring gene predicted gene 11266 Neighboring gene predicted gene 11267

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

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
PubMed 
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
PubMed 
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
PubMed 
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
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

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)

  1. NM_001113209.2NP_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
    P97863, Q9R1G4
    UniProtKB/TrEMBL
    A0A6P5PMJ1, A0A8C6HW95, Q6GSP7
    Related
    ENSMUSP00000052863.9, ENSMUST00000050872.15
    Conserved Domains (3) summary
    pfam00859
    Location:209498
    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:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain
  2. NM_001113210.2NP_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
    A0A6P5PL36, Q6GSP7
    Related
    ENSMUSP00000102868.2, ENSMUST00000107247.8
    Conserved Domains (3) summary
    pfam00859
    Location:209489
    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:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain
  3. NM_001286127.1NP_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
    A0A6P7QST9, Q6GSP7
    Related
    ENSMUSP00000102865.3, ENSMUST00000107245.9
    Conserved Domains (3) summary
    pfam00859
    Location:209493
    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:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain
  4. NM_001286131.1NP_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
    A0A8C6HUU7, Q6GSP7
    Related
    ENSMUSP00000102866.2, ENSMUST00000107246.2
    Conserved Domains (3) summary
    cl00055
    Location:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain
    pfam00859
    Location:209416
    CTF_NFI; CTF/NF-I family transcription modulation region
    pfam10524
    Location:947
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
  5. NM_008687.6NP_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/Swiss-Prot
    P97863
    UniProtKB/TrEMBL
    A0A6P5PF05, A0A8C6HX89, Q6GSP7
    Related
    ENSMUSP00000067629.3, ENSMUST00000064770.9
    Conserved Domains (3) summary
    pfam00859
    Location:209415
    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:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    82208410..82424988 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (3) summary
    pfam00859
    Location:209416
    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:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain
  2. XM_006537654.3XP_006537717.1  nuclear factor 1 B-type isoform X2

    UniProtKB/TrEMBL
    A0A6P7QUY6
    Conserved Domains (3) summary
    pfam00859
    Location:209502
    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:69173
    MH1; N-terminal Mad Homology 1 (MH1) domain
  3. XM_036163813.1XP_036019706.1  nuclear factor 1 B-type isoform X6

    Conserved Domains (3) summary
    pfam10524
    Location:238
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    pfam00859
    Location:200406
    CTF_NFI; CTF/NF-I family transcription modulation region
    cl00055
    Location:60164
    MH1; N-terminal Mad Homology 1 (MH1) domain
  4. XM_030253304.2XP_030109164.1  nuclear factor 1 B-type isoform X4

    Conserved Domains (4) summary
    PRK15127
    Location:376466
    PRK15127; multidrug efflux RND transporter permease subunit AcrB
    pfam00859
    Location:200407
    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:60164
    MH1; N-terminal Mad Homology 1 (MH1) domain
  5. XM_036163812.1XP_036019705.1  nuclear factor 1 B-type isoform X3

    Conserved Domains (3) summary
    pfam10524
    Location:238
    NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
    pfam00859
    Location:200493
    CTF_NFI; CTF/NF-I family transcription modulation region
    cl00055
    Location:60164
    MH1; N-terminal Mad Homology 1 (MH1) domain
  6. XM_006537653.5XP_006537716.1  nuclear factor 1 B-type isoform X1

    Conserved Domains (3) summary
    pfam00859
    Location:200489
    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:60164
    MH1; N-terminal Mad Homology 1 (MH1) domain

RNA

  1. XR_004941830.1 RNA Sequence