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    Nfib nuclear factor I/B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29227, updated on 3-Dec-2024

    Summary

    Official Symbol
    Nfibprovided by RGD
    Official Full Name
    nuclear factor I/Bprovided by RGD
    Primary source
    RGD:62015
    See related
    EnsemblRapid:ENSRNOG00000009795 AllianceGenome:RGD:62015
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables double-stranded DNA binding activity. Involved in positive regulation of DNA-templated transcription. Predicted to be located in cerebellar mossy fiber; fibrillar center; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human NFIB (nuclear factor I B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 413.1), Lung (RPKM 373.9) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Nfib in Genome Data Viewer
    Location:
    5q31
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (101805168..102020618, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (96759208..96974001, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (100436343..100647962, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479003 Neighboring gene uncharacterized LOC120103156 Neighboring gene uncharacterized LOC134486945 Neighboring gene uncharacterized LOC134486946 Neighboring gene uncharacterized LOC100910558 Neighboring gene uncharacterized LOC102551858

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in anterior commissure morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in anterior commissure morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in brain development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cell differentiation involved in salivary gland development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell proliferation in forebrain ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chondrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chondrocyte differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in club cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in club cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in commissural neuron axon guidance ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in commissural neuron axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within exit from mitosis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within forebrain development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within generation of neurons ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within glandular epithelial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glial cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within glial cell fate specification ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within glial cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within hindbrain development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lung ciliated cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lung ciliated cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within lung development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of epithelial cell proliferation involved in lung morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of epithelial cell proliferation involved in lung morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of mesenchymal cell proliferation involved in lung development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of mesenchymal cell proliferation involved in lung development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neurogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neuron fate specification ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-templated transcription TAS
    Traceable Author Statement
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in principal sensory nucleus of trigeminal nerve development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in principal sensory nucleus of trigeminal nerve development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within regeneration ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to wounding ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within retina development in camera-type eye ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within salivary gland cavitation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of stem cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within tissue homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in type I pneumocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in type I pneumocyte differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in type II pneumocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in type II pneumocyte differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in cerebellar mossy fiber ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cerebellar mossy fiber ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    nuclear factor 1 B-type
    Names
    olfactory epithelium nuclear factor I-B

    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.

    mRNA and Protein(s)

    1. NM_001398938.2NP_001385867.1  nuclear factor 1 B-type isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F1LLY9, F7F711, O70185
      Conserved Domains (3) summary
      pfam10524
      Location:1047
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:209489
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:69173
      MH1; N-terminal Mad Homology 1 (MH1) domain
    2. NM_001398939.2NP_001385868.1  nuclear factor 1 B-type isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8I5ZX78, F7END1, O70187
      Conserved Domains (3) summary
      pfam10524
      Location:1047
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:209415
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:69173
      MH1; N-terminal Mad Homology 1 (MH1) domain
    3. NM_001429567.1NP_001416496.1  nuclear factor 1 B-type isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8I6AFY4, F7END1
    4. NM_001429568.1NP_001416497.1  nuclear factor 1 B-type isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7F711
    5. NM_001429569.1NP_001416498.1  nuclear factor 1 B-type isoform 6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7F711
    6. NM_001429570.1NP_001416499.1  nuclear factor 1 B-type isoform 7

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A0A8J8YK50, F7F711
    7. NM_001429571.1NP_001416500.1  nuclear factor 1 B-type isoform 8

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7F711
    8. NM_001429572.1NP_001416501.1  nuclear factor 1 B-type isoform 9

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6J836, F7END1
    9. NM_001429573.1NP_001416502.1  nuclear factor 1 B-type isoform 10

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7END1
    10. NM_001429574.1NP_001416503.1  nuclear factor 1 B-type isoform 11

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7END1
    11. NM_001429575.1NP_001416504.1  nuclear factor 1 B-type isoform 12

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7END1
    12. NM_031566.3NP_113754.1  nuclear factor 1 B-type isoform 2

      See identical proteins and their annotated locations for NP_113754.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F7F711, O70186
      Related
      ENSRNOP00000063791.3, ENSRNOT00000067538.5
      Conserved Domains (3) summary
      pfam10524
      Location:1047
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:209493
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:69173
      MH1; N-terminal Mad Homology 1 (MH1) domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      101805168..102020618 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109355.2XP_038965283.1  nuclear factor 1 B-type isoform X8

      Related
      ENSRNOP00000111591.1, ENSRNOT00000134746.1
      Conserved Domains (4) summary
      PRK15127
      Location:385475
      PRK15127; multidrug efflux RND transporter permease subunit AcrB
      pfam10524
      Location:1047
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:209416
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:69173
      MH1; N-terminal Mad Homology 1 (MH1) domain
    2. XM_063287247.1XP_063143317.1  nuclear factor 1 B-type isoform X7

    3. XM_006238335.5XP_006238397.1  nuclear factor 1 B-type isoform X3

      Related
      ENSRNOP00000108916.1, ENSRNOT00000149928.1
      Conserved Domains (3) summary
      pfam10524
      Location:1047
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:209498
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:69173
      MH1; N-terminal Mad Homology 1 (MH1) domain
    4. XM_008763762.4XP_008761984.2  nuclear factor 1 B-type isoform X2

    5. XM_017593197.3XP_017448686.2  nuclear factor 1 B-type isoform X1

      UniProtKB/TrEMBL
      F7END1
    6. XM_017593199.3XP_017448688.2  nuclear factor 1 B-type isoform X5

      UniProtKB/TrEMBL
      F7F711
    7. XM_017593198.3XP_017448687.2  nuclear factor 1 B-type isoform X4

    8. XM_039109354.2XP_038965282.2  nuclear factor 1 B-type isoform X6

      UniProtKB/TrEMBL
      F7END1
    9. XM_017593200.3XP_017448689.2  nuclear factor 1 B-type isoform X9

      Related
      ENSRNOP00000109289.1, ENSRNOT00000148312.1
    10. XM_063287249.1XP_063143319.1  nuclear factor 1 B-type isoform X11

    11. XM_039109357.2XP_038965285.1  nuclear factor 1 B-type isoform X10

      Conserved Domains (1) summary
      pfam00859
      Location:39328
      CTF_NFI; CTF/NF-I family transcription modulation region