Human Gene BASP1 (ENST00000322611.4_4) from GENCODE V47lift37
  Description: brain abundant membrane attached signal protein 1, transcript variant 1 (from RefSeq NM_006317.5)
Gencode Transcript: ENST00000322611.4_4
Gencode Gene: ENSG00000176788.9_8
Transcript (Including UTRs)
   Position: hg19 chr5:17,217,740-17,276,943 Size: 59,204 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr5:17,275,326-17,276,009 Size: 684 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:17,217,740-17,276,943)mRNA (may differ from genome)Protein (227 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BASP1_HUMAN
DESCRIPTION: RecName: Full=Brain acid soluble protein 1; AltName: Full=22 kDa neuronal tissue-enriched acidic protein; AltName: Full=Neuronal axonal membrane protein NAP-22;
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor. Cell projection, growth cone. Note=Associated with the membranes of growth cones that form the tips of elongating axons.
TISSUE SPECIFICITY: Brain.
MASS SPECTROMETRY: Mass=22780; Method=Electrospray; Range=2-227; Source=PubMed:9310187;
SIMILARITY: Belongs to the BASP1 family.

-  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


-  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: 237.23 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 2158.90 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 -79.20189-0.419 Picture PostScript Text
3' UTR -201.50934-0.216 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
IPR008408 - BASP1

Pfam Domains:
PF05466 - Brain acid soluble protein 1 (BASP1 protein)

ModBase Predicted Comparative 3D Structure on P80723
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:0003714 transcription corepressor activity
GO:0005515 protein binding
GO:0019904 protein domain specific binding
GO:0044212 transcription regulatory region DNA binding

Biological Process:
GO:0007356 thorax and anterior abdomen determination
GO:0008406 gonad development
GO:0021762 substantia nigra development
GO:0045892 negative regulation of transcription, DNA-templated
GO:0060231 mesenchymal to epithelial transition
GO:0060421 positive regulation of heart growth
GO:0060539 diaphragm development
GO:0072075 metanephric mesenchyme development
GO:0072112 glomerular visceral epithelial cell differentiation
GO:2001076 positive regulation of metanephric ureteric bud development

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016607 nuclear speck
GO:0030054 cell junction
GO:0030426 growth cone
GO:0031982 vesicle
GO:0042995 cell projection
GO:0070062 extracellular exosome
GO:0008180 COP9 signalosome


-  Descriptions from all associated GenBank mRNAs
  AK314152 - Homo sapiens cDNA, FLJ94858.
AK295995 - Homo sapiens cDNA FLJ51212 complete cds, moderately similar to Brain acid soluble protein 1.
BC000518 - Homo sapiens brain abundant, membrane attached signal protein 1, mRNA (cDNA clone MGC:8555 IMAGE:2822874), complete cds.
AF039656 - Homo sapiens neuronal tissue-enriched acidic protein (NAP-22) mRNA, complete cds.
JD148764 - Sequence 129788 from Patent EP1572962.
DQ894566 - Synthetic construct Homo sapiens clone IMAGE:100009026; FLH176464.01L; RZPDo839D08121D brain abundant, membrane attached signal protein 1 (BASP1) gene, encodes complete protein.
EU176302 - Synthetic construct Homo sapiens clone IMAGE:100006382; FLH176471.01X; RZPDo839A04251D brain abundant, membrane attached signal protein 1 (BASP1) gene, encodes complete protein.
JD309142 - Sequence 290166 from Patent EP1572962.
BT019340 - Homo sapiens brain abundant, membrane attached signal protein 1 mRNA, complete cds.
BT019341 - Homo sapiens brain abundant, membrane attached signal protein 1 mRNA, complete cds.
JD445556 - Sequence 426580 from Patent EP1572962.
JD128583 - Sequence 109607 from Patent EP1572962.
DL491614 - Novel nucleic acids.
JD501140 - Sequence 482164 from Patent EP1572962.
JD292154 - Sequence 273178 from Patent EP1572962.
JD171885 - Sequence 152909 from Patent EP1572962.
JD454257 - Sequence 435281 from Patent EP1572962.
JD053490 - Sequence 34514 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DJA8, BASP1_HUMAN, D3DTD5, ENST00000322611.1, ENST00000322611.2, ENST00000322611.3, NAP22, NM_006317, O43596, P80723, Q5U0S0, Q9BWA5, uc317rhs.1, uc317rhs.2
UCSC ID: ENST00000322611.4_4
RefSeq Accession: NM_006317.5
Protein: P80723 (aka BASP1_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.