Human Gene SPN (ENST00000652691.1_3) from GENCODE V47lift37
  Description: sialophorin, transcript variant 2 (from RefSeq NM_003123.6)
Gencode Transcript: ENST00000652691.1_3
Gencode Gene: ENSG00000197471.12_12
Transcript (Including UTRs)
   Position: hg19 chr16:29,674,568-29,682,197 Size: 7,630 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr16:29,675,050-29,676,252 Size: 1,203 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:29,674,568-29,682,197)mRNA (may differ from genome)Protein (400 aa)
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LEUK_HUMAN
DESCRIPTION: RecName: Full=Leukosialin; AltName: Full=Galactoglycoprotein; Short=GALGP; AltName: Full=Leukocyte sialoglycoprotein; AltName: Full=Sialophorin; AltName: CD_antigen=CD43; Flags: Precursor;
FUNCTION: One of the major glycoproteins of thymocytes and T lymphocytes. Plays a role in the physicochemical properties of the T-cell surface and in lectin binding. Presents carbohydrate ligands to selectins. Has an extended rodlike structure that could protrude above the glycocalyx of the cell and allow multiple glycan chains to be accessible for binding. Is a counter-receptor for SN/Siglec-1 (By similarity). During T-cell activation is actively removed from the T-cell-APC (antigen-presenting cell) contact site thus suggesting a negative regulatory role in adaptive immune response (By similarity).
SUBUNIT: Interacts with HIPK2 via the cytoplasmic domain. Interacts with RDX (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Cell surface of thymocytes, T-lymphocytes, neutrophils, plasma cells and myelomas.
PTM: Glycosylated; has a high content of sialic acid and O-linked carbohydrate structures.

-  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: SPN
Diseases sorted by gene-association score: wiskott-aldrich syndrome (7), adenoid basal cell carcinoma (5), aleukemic monocytic leukemia cutis (5), multicentric papillary thyroid carcinoma (3), malignant leydig cell tumor (2), rhinoscleroma (2), lymphoma, non-hodgkin (1), lymphoma, malt, somatic (1), reticulohistiocytic granuloma (1), aleukemic leukemia cutis (1), carbuncle (1), leber congenital amaurosis (1)

-  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.

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -33.00104-0.317 Picture PostScript Text
3' UTR -2890.705945-0.486 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
  ModBase Predicted Comparative 3D Structure on P16150
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004888 transmembrane signaling receptor activity
GO:0030544 Hsp70 protein binding
GO:0031072 heat shock protein binding

Biological Process:
GO:0002296 T-helper 1 cell lineage commitment
GO:0006935 chemotaxis
GO:0006955 immune response
GO:0006968 cellular defense response
GO:0007162 negative regulation of cell adhesion
GO:0007163 establishment or maintenance of cell polarity
GO:0007165 signal transduction
GO:0032609 interferon-gamma production
GO:0042130 negative regulation of T cell proliferation
GO:0042535 positive regulation of tumor necrosis factor biosynthetic process
GO:0042742 defense response to bacterium
GO:0050863 regulation of T cell activation
GO:0050900 leukocyte migration
GO:0050901 leukocyte tethering or rolling
GO:2000404 regulation of T cell migration
GO:2000406 positive regulation of T cell migration

Cellular Component:
GO:0001931 uropod
GO:0005615 extracellular space
GO:0005634 nucleus
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0005902 microvillus
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016605 PML body
GO:0042995 cell projection
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  CU680296 - Synthetic construct Homo sapiens gateway clone IMAGE:100023398 5' read SPN mRNA.
KJ892193 - Synthetic construct Homo sapiens clone ccsbBroadEn_01587 SPN gene, encodes complete protein.
X60502 - Human leukosialin cDNA-II.
BC012350 - Homo sapiens sialophorin, mRNA (cDNA clone MGC:20177 IMAGE:4564347), complete cds.
AK313750 - Homo sapiens cDNA, FLJ94351, Homo sapiens sialophorin (gpL115, leukosialin, CD43) (SPN), mRNA.
AK292626 - Homo sapiens cDNA FLJ77999 complete cds, highly similar to Homo sapiens sialophorin (gpL115, leukosialin, CD43), mRNA.
J04168 - Human leukosialin mRNA, complete cds.
JD193192 - Sequence 174216 from Patent EP1572962.
J04536 - Human sialophorin (CD43) mRNA, complete cds.
JD401069 - Sequence 382093 from Patent EP1572962.
AB464706 - Synthetic construct DNA, clone: pF1KB9858, Homo sapiens SPN gene for sialophorin, without stop codon, in Flexi system.
DQ895464 - Synthetic construct Homo sapiens clone IMAGE:100009924; FLH184675.01L; RZPDo839A09145D sialophorin (leukosialin, CD43) (SPN) gene, encodes complete protein.
DQ892262 - Synthetic construct clone IMAGE:100004892; FLH184679.01X; RZPDo839A09146D sialophorin (leukosialin, CD43) (SPN) gene, encodes complete protein.
JD352416 - Sequence 333440 from Patent EP1572962.
JD248688 - Sequence 229712 from Patent EP1572962.
JD367777 - Sequence 348801 from Patent EP1572962.
JD389496 - Sequence 370520 from Patent EP1572962.
JD300510 - Sequence 281534 from Patent EP1572962.
JD558206 - Sequence 539230 from Patent EP1572962.
JD289234 - Sequence 270258 from Patent EP1572962.
JD296028 - Sequence 277052 from Patent EP1572962.
JD523018 - Sequence 504042 from Patent EP1572962.
JD352642 - Sequence 333666 from Patent EP1572962.
JD524918 - Sequence 505942 from Patent EP1572962.
JD348078 - Sequence 329102 from Patent EP1572962.
JD520941 - Sequence 501965 from Patent EP1572962.
JD489368 - Sequence 470392 from Patent EP1572962.
JD489369 - Sequence 470393 from Patent EP1572962.
JD499962 - Sequence 480986 from Patent EP1572962.
JD499963 - Sequence 480987 from Patent EP1572962.
JD072906 - Sequence 53930 from Patent EP1572962.
JD163684 - Sequence 144708 from Patent EP1572962.
JD391718 - Sequence 372742 from Patent EP1572962.
JD064579 - Sequence 45603 from Patent EP1572962.
JD119913 - Sequence 100937 from Patent EP1572962.
JD264605 - Sequence 245629 from Patent EP1572962.
JD311694 - Sequence 292718 from Patent EP1572962.
JD293782 - Sequence 274806 from Patent EP1572962.
JD336282 - Sequence 317306 from Patent EP1572962.
JD192813 - Sequence 173837 from Patent EP1572962.
JD377666 - Sequence 358690 from Patent EP1572962.
BC035510 - Homo sapiens sialophorin, mRNA (cDNA clone IMAGE:5094058), with apparent retained intron.
JD291858 - Sequence 272882 from Patent EP1572962.
JD321948 - Sequence 302972 from Patent EP1572962.
JD321947 - Sequence 302971 from Patent EP1572962.
JD426706 - Sequence 407730 from Patent EP1572962.
JD220885 - Sequence 201909 from Patent EP1572962.
JD285481 - Sequence 266505 from Patent EP1572962.
JD106959 - Sequence 87983 from Patent EP1572962.
JD312183 - Sequence 293207 from Patent EP1572962.
JD466377 - Sequence 447401 from Patent EP1572962.
JD063122 - Sequence 44146 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P16150 (Reactome details) participates in the following event(s):

R-HSA-204465 Basigin interacts with CD43
R-HSA-2870221 E-selectin binds E-selectin ligand
R-HSA-210991 Basigin interactions
R-HSA-202733 Cell surface interactions at the vascular wall
R-HSA-109582 Hemostasis

-  Other Names for This Gene
  Alternate Gene Symbols: A8K9B1, CD43, LEUK_HUMAN, NM_003123, P16150, uc328url.1, uc328url.2
UCSC ID: ENST00000652691.1_3
RefSeq Accession: NM_003123.6
Protein: P16150 (aka LEUK_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.