Human Gene FUBP1 (ENST00000370768.7_9) from GENCODE V47lift37
  Description: far upstream element binding protein 1, transcript variant 10 (from RefSeq NR_164756.1)
Gencode Transcript: ENST00000370768.7_9
Gencode Gene: ENSG00000162613.18_16
Transcript (Including UTRs)
   Position: hg19 chr1:78,409,740-78,444,756 Size: 35,017 Total Exon Count: 20 Strand: -
Coding Region
   Position: hg19 chr1:78,414,451-78,444,688 Size: 30,238 Coding Exon Count: 20 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:78,409,740-78,444,756)mRNA (may differ from genome)Protein (644 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsHGNCMalacards
MGIPubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: FUBP1_HUMAN
DESCRIPTION: RecName: Full=Far upstream element-binding protein 1; Short=FBP; Short=FUSE-binding protein 1; AltName: Full=DNA helicase V; Short=hDH V;
FUNCTION: Regulates MYC expression by binding to a single-stranded far-upstream element (FUSE) upstream of the MYC promoter. May act both as activator and repressor of transcription.
SUBUNIT: Found in a complex with PUF60 and far upstream element (FUSE) DNA segment. Interacts with PUF60 and JTV1.
SUBCELLULAR LOCATION: Nucleus (Probable).
PTM: Ubiquitinated. This targets the protein for proteasome- mediated degradation.
SIMILARITY: Contains 4 KH domains.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: FUBP1
Diseases sorted by gene-association score: oligodendroglioma (3), mouth disease (2)

-  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: 39.78 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 856.59 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 -16.0068-0.235 Picture PostScript Text
3' UTR -1082.904711-0.230 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
IPR015096 - DUF1897
IPR004087 - KH_dom
IPR004088 - KH_dom_type_1

Pfam Domains:
PF00013 - KH domain
PF07650 - KH domain
PF09005 - Domain of unknown function (DUF1897)

SCOP Domains:
54791 - Eukaryotic type KH-domain (KH-domain type I)
54814 - Prokaryotic type KH domain (KH-domain type II)

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1J4W - NMR MuPIT 2KXH - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q96AE4
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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003697 single-stranded DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0010628 positive regulation of gene expression

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  LF206373 - JP 2014500723-A/13876: Polycomb-Associated Non-Coding RNAs.
BX538272 - Homo sapiens mRNA; cDNA DKFZp779L1713 (from clone DKFZp779L1713).
AB209366 - Homo sapiens mRNA for far upstream element-binding protein variant protein.
AL049951 - Homo sapiens mRNA; cDNA DKFZp564O0122 (from clone DKFZp564O0122).
LF353649 - JP 2014500723-A/161152: Polycomb-Associated Non-Coding RNAs.
LF353648 - JP 2014500723-A/161151: Polycomb-Associated Non-Coding RNAs.
LF353647 - JP 2014500723-A/161150: Polycomb-Associated Non-Coding RNAs.
LF353646 - JP 2014500723-A/161149: Polycomb-Associated Non-Coding RNAs.
JD020029 - Sequence 1053 from Patent EP1572962.
LF353645 - JP 2014500723-A/161148: Polycomb-Associated Non-Coding RNAs.
LF353644 - JP 2014500723-A/161147: Polycomb-Associated Non-Coding RNAs.
BC017247 - Homo sapiens far upstream element (FUSE) binding protein 1, mRNA (cDNA clone MGC:29580 IMAGE:4891583), complete cds.
GQ900935 - Homo sapiens clone HEL-T-47 epididymis secretory sperm binding protein mRNA, complete cds.
LF353642 - JP 2014500723-A/161145: Polycomb-Associated Non-Coding RNAs.
LF353641 - JP 2014500723-A/161144: Polycomb-Associated Non-Coding RNAs.
EU176379 - Synthetic construct Homo sapiens clone IMAGE:100006476; FLH188770.01X; RZPDo839F1173D far upstream element (FUSE) binding protein 1 (FUBP1) gene, encodes complete protein.
DQ895919 - Synthetic construct Homo sapiens clone IMAGE:100010379; FLH188766.01L; RZPDo839F1163D far upstream element (FUSE) binding protein 1 (FUBP1) gene, encodes complete protein.
LF353640 - JP 2014500723-A/161143: Polycomb-Associated Non-Coding RNAs.
U05040 - Homo sapiens FUSE binding protein mRNA, complete cds.
AK303568 - Homo sapiens cDNA FLJ61021 complete cds, highly similar to Far upstream element-binding protein 1.
AK301581 - Homo sapiens cDNA FLJ59240 complete cds, highly similar to Far upstream element-binding protein 1.
AK300032 - Homo sapiens cDNA FLJ53425 complete cds, highly similar to Far upstream element-binding protein 1.
LF353639 - JP 2014500723-A/161142: Polycomb-Associated Non-Coding RNAs.
KY569017 - Homo sapiens FUBP1 (FUBP1) mRNA, complete cds.
BD450072 - Screening method of agents for treating proliferative diseases.
LF353636 - JP 2014500723-A/161139: Polycomb-Associated Non-Coding RNAs.
LF353634 - JP 2014500723-A/161137: Polycomb-Associated Non-Coding RNAs.
LF353628 - JP 2014500723-A/161131: Polycomb-Associated Non-Coding RNAs.
BC010083 - Homo sapiens far upstream element (FUSE) binding protein 1, mRNA (cDNA clone IMAGE:4330984), partial cds.
LF353626 - JP 2014500723-A/161129: Polycomb-Associated Non-Coding RNAs.
LF353625 - JP 2014500723-A/161128: Polycomb-Associated Non-Coding RNAs.
BD450070 - Screening method of agents for treating proliferative diseases.
LF353624 - JP 2014500723-A/161127: Polycomb-Associated Non-Coding RNAs.
LF353623 - JP 2014500723-A/161126: Polycomb-Associated Non-Coding RNAs.
LF353618 - JP 2014500723-A/161121: Polycomb-Associated Non-Coding RNAs.
MA441950 - JP 2018138019-A/13876: Polycomb-Associated Non-Coding RNAs.
MA589226 - JP 2018138019-A/161152: Polycomb-Associated Non-Coding RNAs.
MA589225 - JP 2018138019-A/161151: Polycomb-Associated Non-Coding RNAs.
MA589224 - JP 2018138019-A/161150: Polycomb-Associated Non-Coding RNAs.
MA589223 - JP 2018138019-A/161149: Polycomb-Associated Non-Coding RNAs.
MA589222 - JP 2018138019-A/161148: Polycomb-Associated Non-Coding RNAs.
MA589221 - JP 2018138019-A/161147: Polycomb-Associated Non-Coding RNAs.
MA589219 - JP 2018138019-A/161145: Polycomb-Associated Non-Coding RNAs.
MA589218 - JP 2018138019-A/161144: Polycomb-Associated Non-Coding RNAs.
MA589217 - JP 2018138019-A/161143: Polycomb-Associated Non-Coding RNAs.
MA589216 - JP 2018138019-A/161142: Polycomb-Associated Non-Coding RNAs.
MA589213 - JP 2018138019-A/161139: Polycomb-Associated Non-Coding RNAs.
MA589211 - JP 2018138019-A/161137: Polycomb-Associated Non-Coding RNAs.
MA589205 - JP 2018138019-A/161131: Polycomb-Associated Non-Coding RNAs.
MA589203 - JP 2018138019-A/161129: Polycomb-Associated Non-Coding RNAs.
MA589202 - JP 2018138019-A/161128: Polycomb-Associated Non-Coding RNAs.
MA589201 - JP 2018138019-A/161127: Polycomb-Associated Non-Coding RNAs.
MA589200 - JP 2018138019-A/161126: Polycomb-Associated Non-Coding RNAs.
MA589195 - JP 2018138019-A/161121: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000370768.1, ENST00000370768.2, ENST00000370768.3, ENST00000370768.4, ENST00000370768.5, ENST00000370768.6, FUBP1_HUMAN, NR_164756, Q12828, Q96AE4, uc318iqk.1, uc318iqk.2
UCSC ID: ENST00000370768.7_9
RefSeq Accession: NM_003902.5
Protein: Q96AE4 (aka FUBP1_HUMAN or FUB1_HUMAN)

-  Gene Model Information
  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.