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Nfic nuclear factor I/C [ Mus musculus (house mouse) ]

Gene ID: 18029, updated on 26-Sep-2022

Summary

Official Symbol
Nficprovided by MGI
Official Full Name
nuclear factor I/Cprovided by MGI
Primary source
MGI:MGI:109591
See related
Ensembl:ENSMUSG00000055053 AllianceGenome:MGI:109591
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
NF1-C; 1110019L22Rik; 1500041O16Rik
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of transcription by RNA polymerase II. Acts upstream of or within odontogenesis of dentin-containing tooth. Predicted to be located in fibrillar center and nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; retina nuclear layer; and skeletal musculature. Orthologous to human NFIC (nuclear factor I C). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in adrenal adult (RPKM 27.2), lung adult (RPKM 13.1) and 19 other tissues See more
Orthologs
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Genomic context

See Nfic in Genome Data Viewer
Location:
10 C1; 10 39.72 cM
Exon count:
11
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (81232025..81267753, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (81396191..81431919, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 48551 Neighboring gene predicted gene, 48552 Neighboring gene small integral membrane protein 24 Neighboring gene predicted gene 16104 Neighboring gene microRNA 1191b Neighboring gene predicted gene, 53593 Neighboring gene predicted gene, 51811 Neighboring gene CUGBP, Elav-like family member 5 Neighboring gene nicalin

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 (1)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Component Evidence Code Pubs
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 ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
nuclear factor 1 C-type
Names
CCAAT-box-binding transcription factor
CTF
NF-I/C
NFI-C
TGGCA-binding protein
nuclear factor 1-C2
nuclear factor 1/C

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_008688.3NP_032714.1  nuclear factor 1 C-type isoform a

    See identical proteins and their annotated locations for NP_032714.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes a longer isoform (a).
    Source sequence(s)
    AC155937, AK087539, BY226699
    Consensus CDS
    CCDS24058.1
    UniProtKB/Swiss-Prot
    P70255, Q9R1G3
    UniProtKB/TrEMBL
    A0A6P5Q945
    Related
    ENSMUSP00000020461.9, ENSMUST00000020461.15
    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
  2. NM_026756.2NP_081032.2  nuclear factor 1 C-type isoform b

    See identical proteins and their annotated locations for NP_081032.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate penultimate exon, resulting in a novel 3' coding region and shorter 3' UTR, compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AC155937, AK147496, BY226699
    Consensus CDS
    CCDS35999.1
    UniProtKB/TrEMBL
    A0A6P5QFT8, Q3UHA6
    Related
    ENSMUSP00000100958.4, ENSMUST00000105321.10
    Conserved Domains (3) summary
    pfam00859
    Location:217423
    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

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    81232025..81267753 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030244940.1XP_030100800.1  nuclear factor 1 C-type isoform X2

    Conserved Domains (3) summary
    pfam00859
    Location:208414
    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
  2. XM_006513335.4XP_006513398.1  nuclear factor 1 C-type isoform X1

    See identical proteins and their annotated locations for XP_006513398.1

    UniProtKB/Swiss-Prot
    P70255
    UniProtKB/TrEMBL
    A0A6P5QLY4
    Related
    ENSMUSP00000113046.2, ENSMUST00000117966.2
    Conserved Domains (3) summary
    pfam00859
    Location:208415
    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