Human Gene NFIB (uc022bdo.1) Description and Page Index
  Description: Homo sapiens nuclear factor I/B (NFIB), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:14,081,842-14,314,045 Size: 232,204 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr9:14,088,196-14,313,510 Size: 225,315 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:14,081,842-14,314,045)mRNA (may differ from genome)Protein (561 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
Stanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q5VW30_HUMAN
DESCRIPTION: RecName: Full=Nuclear factor 1;
FUNCTION: Recognizes and binds the palindromic sequence 5'- TTGGCNNNNNGCCAA-3' present in viral and cellular promoters and in the origin of replication of adenovirus type 2. These proteins are individually capable of activating transcription and replication (By similarity).
SUBUNIT: Binds DNA as a homodimer (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Belongs to the CTF/NF-I family.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): NFIB
CDC HuGE Published Literature: NFIB
Positive Disease Associations: Body Weight , Lipoproteins , Macular Degeneration , Sodium , Stroke
Related Studies:
  1. Body Weight
    Caroline S Fox et al. BMC medical genetics 2007, Genome-wide association to body mass index and waist circumference: the Framingham Heart Study 100K project., BMC medical genetics. [PubMed 17903300]
    Adiposity traits are associated with SNPs on the Affymetrix 100K SNP GeneChip. Replication of these initial findings is necessary. These data will serve as a resource for replication as more genes become identified with BMI and WC.
  2. Lipoproteins
    , , . [PubMed 0]
  3. Macular Degeneration
    , , . [PubMed 0]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: NFIB
Diseases sorted by gene-association score: breast adenoid cystic carcinoma (16), infiltrating lipoma (16), lipoma of colon (12), large intestine lipoma (12), pulmonary neuroendocrine tumor (9), lung adenoid cystic carcinoma (6), pilocytic astrocytoma (5), polymorphous low-grade adenocarcinoma (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 22.35 RPKM in Minor Salivary Gland
Total median expression: 399.77 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -151.30535-0.283 Picture PostScript Text
3' UTR -1713.076354-0.270 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000647 - CTF/NFI
IPR020604 - CTF/NFI_DNA-bd-dom
IPR019739 - CTF/NFI_DNA-bd_CS
IPR019548 - CTF/NFI_DNA-bd_N
IPR003619 - MAD_homology1_Dwarfin-type

Pfam Domains:
PF00859 - CTF/NF-I family transcription modulation region
PF03165 - MH1 domain
PF10524 - Nuclear factor I protein pre-N-terminus

ModBase Predicted Comparative 3D Structure on Q5VW30
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding

Biological Process:
GO:0006260 DNA replication
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated

Cellular Component:
GO:0001650 fibrillar center
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  LF206501 - JP 2014500723-A/14004: Polycomb-Associated Non-Coding RNAs.
U85193 - Human nuclear factor I-B2 (NFIB2) mRNA, complete cds.
BX648416 - Homo sapiens mRNA; cDNA DKFZp686E13259 (from clone DKFZp686E13259).
BC001283 - Homo sapiens nuclear factor I/B, mRNA (cDNA clone MGC:5146 IMAGE:3462726), complete cds.
BX648845 - Homo sapiens mRNA; cDNA DKFZp686M02153 (from clone DKFZp686M02153).
AK299605 - Homo sapiens cDNA FLJ59242 complete cds, highly similar to Nuclear factor 1 B-type.
AK131233 - Homo sapiens cDNA FLJ16142 fis, clone BRAMY2035718, highly similar to NUCLEAR FACTOR 1-B.
AK290603 - Homo sapiens cDNA FLJ76115 complete cds, highly similar to Homo sapiens nuclear factor I/B (NFIB), mRNA.
AB587464 - Synthetic construct DNA, clone: pF1KB8290, Homo sapiens NFIB gene for nuclear factor I/B, without stop codon, in Flexi system.
BT007266 - Homo sapiens nuclear factor I/B mRNA, complete cds.
DQ891097 - Synthetic construct clone IMAGE:100003727; FLH169314.01X; RZPDo839A1196D nuclear factor I/B (NFIB) gene, encodes complete protein.
KJ891697 - Synthetic construct Homo sapiens clone ccsbBroadEn_01091 NFIB gene, encodes complete protein.
DQ894279 - Synthetic construct Homo sapiens clone IMAGE:100008739; FLH169310.01L; RZPDo839A1195D nuclear factor I/B (NFIB) gene, encodes complete protein.
EU832141 - Synthetic construct Homo sapiens clone HAIB:100067170; DKFZo008E0725 nuclear factor I/B protein (NFIB) gene, encodes complete protein.
EU832234 - Synthetic construct Homo sapiens clone HAIB:100067263; DKFZo004E0726 nuclear factor I/B protein (NFIB) gene, encodes complete protein.
KU178232 - Homo sapiens nuclear factor I/B isoform 1 (NFIB) mRNA, partial cds.
KU178233 - Homo sapiens nuclear factor I/B isoform 2 (NFIB) mRNA, complete cds, alternatively spliced.
U07810 - Human nuclear factor 1 B-type mRNA, partial cds.
MA442078 - JP 2018138019-A/14004: Polycomb-Associated Non-Coding RNAs.
AK021832 - Homo sapiens cDNA FLJ11770 fis, clone HEMBA1005813.
AL110126 - Homo sapiens mRNA; cDNA DKFZp564H1916 (from clone DKFZp564H1916).
BX537707 - Homo sapiens mRNA; cDNA DKFZp686F23223 (from clone DKFZp686F23223).
AK129782 - Homo sapiens cDNA FLJ26271 fis, clone DMC06179.
AK094066 - Homo sapiens cDNA FLJ36747 fis, clone UTERU2016799.
BC024316 - Homo sapiens cDNA clone IMAGE:3912859, partial cds.
BX537698 - Homo sapiens mRNA; cDNA DKFZp686F09166 (from clone DKFZp686F09166).
LF355238 - JP 2014500723-A/162741: Polycomb-Associated Non-Coding RNAs.
LF355239 - JP 2014500723-A/162742: Polycomb-Associated Non-Coding RNAs.
LF355240 - JP 2014500723-A/162743: Polycomb-Associated Non-Coding RNAs.
LF355241 - JP 2014500723-A/162744: Polycomb-Associated Non-Coding RNAs.
LF355242 - JP 2014500723-A/162745: Polycomb-Associated Non-Coding RNAs.
JD040351 - Sequence 21375 from Patent EP1572962.
AF022215 - Homo sapiens HMGIC/NFIB fusion protein (HMGIC/NFIB) mRNA, partial cds.
JD544913 - Sequence 525937 from Patent EP1572962.
LF355243 - JP 2014500723-A/162746: Polycomb-Associated Non-Coding RNAs.
JD354377 - Sequence 335401 from Patent EP1572962.
LF355244 - JP 2014500723-A/162747: Polycomb-Associated Non-Coding RNAs.
JD082886 - Sequence 63910 from Patent EP1572962.
JD073405 - Sequence 54429 from Patent EP1572962.
LF355245 - JP 2014500723-A/162748: Polycomb-Associated Non-Coding RNAs.
JD469896 - Sequence 450920 from Patent EP1572962.
LF355263 - JP 2014500723-A/162766: Polycomb-Associated Non-Coding RNAs.
LF355268 - JP 2014500723-A/162771: Polycomb-Associated Non-Coding RNAs.
LF355272 - JP 2014500723-A/162775: Polycomb-Associated Non-Coding RNAs.
MA590815 - JP 2018138019-A/162741: Polycomb-Associated Non-Coding RNAs.
MA590816 - JP 2018138019-A/162742: Polycomb-Associated Non-Coding RNAs.
MA590817 - JP 2018138019-A/162743: Polycomb-Associated Non-Coding RNAs.
MA590818 - JP 2018138019-A/162744: Polycomb-Associated Non-Coding RNAs.
MA590819 - JP 2018138019-A/162745: Polycomb-Associated Non-Coding RNAs.
MA590820 - JP 2018138019-A/162746: Polycomb-Associated Non-Coding RNAs.
MA590821 - JP 2018138019-A/162747: Polycomb-Associated Non-Coding RNAs.
MA590822 - JP 2018138019-A/162748: Polycomb-Associated Non-Coding RNAs.
MA590840 - JP 2018138019-A/162766: Polycomb-Associated Non-Coding RNAs.
MA590845 - JP 2018138019-A/162771: Polycomb-Associated Non-Coding RNAs.
MA590849 - JP 2018138019-A/162775: Polycomb-Associated Non-Coding RNAs.
LF355276 - JP 2014500723-A/162779: Polycomb-Associated Non-Coding RNAs.
MA590853 - JP 2018138019-A/162779: Polycomb-Associated Non-Coding RNAs.
U70862 - Human nuclear factor I B3 mRNA, complete cds.
LF355352 - JP 2014500723-A/162855: Polycomb-Associated Non-Coding RNAs.
LF355353 - JP 2014500723-A/162856: Polycomb-Associated Non-Coding RNAs.
LF355354 - JP 2014500723-A/162857: Polycomb-Associated Non-Coding RNAs.
JD158475 - Sequence 139499 from Patent EP1572962.
LF355355 - JP 2014500723-A/162858: Polycomb-Associated Non-Coding RNAs.
LF355356 - JP 2014500723-A/162859: Polycomb-Associated Non-Coding RNAs.
JD066958 - Sequence 47982 from Patent EP1572962.
JD309338 - Sequence 290362 from Patent EP1572962.
JD461113 - Sequence 442137 from Patent EP1572962.
LF355358 - JP 2014500723-A/162861: Polycomb-Associated Non-Coding RNAs.
JD542485 - Sequence 523509 from Patent EP1572962.
LF355359 - JP 2014500723-A/162862: Polycomb-Associated Non-Coding RNAs.
MA590929 - JP 2018138019-A/162855: Polycomb-Associated Non-Coding RNAs.
MA590930 - JP 2018138019-A/162856: Polycomb-Associated Non-Coding RNAs.
MA590931 - JP 2018138019-A/162857: Polycomb-Associated Non-Coding RNAs.
MA590932 - JP 2018138019-A/162858: Polycomb-Associated Non-Coding RNAs.
MA590933 - JP 2018138019-A/162859: Polycomb-Associated Non-Coding RNAs.
MA590935 - JP 2018138019-A/162861: Polycomb-Associated Non-Coding RNAs.
MA590936 - JP 2018138019-A/162862: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AB587464, hCG_1742080, NM_001190737, NP_001177666, Q5VW30, Q5VW30_HUMAN, RP11-280O24.2-004
UCSC ID: uc022bdo.1
RefSeq Accession: NM_001190737
Protein: Q5VW30

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AB587464.1
exon count: 12CDS single in 3' UTR: no RNA size: 1700
ORF size: 1686CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3528.00frame shift in genome: no % Coverage: 99.06
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.