Human Gene SERPINB3 (ENST00000283752.10_8) from GENCODE V47lift37
  Description: serpin family B member 3 (from RefSeq NM_006919.3)
Gencode Transcript: ENST00000283752.10_8
Gencode Gene: ENSG00000057149.16_10
Transcript (Including UTRs)
   Position: hg19 chr18:61,322,431-61,329,127 Size: 6,697 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr18:61,322,891-61,328,450 Size: 5,560 Coding Exon Count: 7 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:61,322,431-61,329,127)mRNA (may differ from genome)Protein (390 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SPB3_HUMAN
DESCRIPTION: RecName: Full=Serpin B3; AltName: Full=Protein T4-A; AltName: Full=Squamous cell carcinoma antigen 1; Short=SCCA-1;
FUNCTION: May act as a protease inhibitor to modulate the host immune response against tumor cells.
SUBCELLULAR LOCATION: Cytoplasm. Note=Seems to also be secreted in plasma by cancerous cells but at a low level.
TISSUE SPECIFICITY: Squamous cells. Expressed in some hepatocellular carcinoma (at protein level).
DEVELOPMENTAL STAGE: Its expression is closely related to cellular differentiation in both normal and malignant squamous cells.
SIMILARITY: Belongs to the serpin family. Ov-serpin subfamily.
SEQUENCE CAUTION: Sequence=AAO11731.1; Type=Erroneous initiation;

-  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: SERPINB3
Diseases sorted by gene-association score: squamous cell carcinoma (25), anus cancer (22), cervical squamous cell carcinoma (22), anal carcinoma in situ (16), bladder squamous cell carcinoma (10), anal canal squamous cell carcinoma (8), tonsil cancer (7), vulva cancer (7), vulva squamous cell carcinoma (7), tonsil squamous cell carcinoma (6), hepatocellular carcinoma (5), cervical cancer, somatic (3)

-  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: 389.78 RPKM in Vagina
Total median expression: 782.90 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 -10.0074-0.135 Picture PostScript Text
3' UTR -80.50460-0.175 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
IPR023795 - Protease_inhib_I4_serpin_CS
IPR023796 - Serpin_dom
IPR000215 - Serpin_fam

Pfam Domains:
PF00079 - Serpin (serine protease inhibitor)

SCOP Domains:
56574 - Serpins

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2ZV6 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P29508
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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 Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001618 virus receptor activity
GO:0002020 protease binding
GO:0004867 serine-type endopeptidase inhibitor activity
GO:0004869 cysteine-type endopeptidase inhibitor activity
GO:0030414 peptidase inhibitor activity

Biological Process:
GO:0008284 positive regulation of cell proliferation
GO:0010466 negative regulation of peptidase activity
GO:0010718 positive regulation of epithelial to mesenchymal transition
GO:0010950 positive regulation of endopeptidase activity
GO:0010951 negative regulation of endopeptidase activity
GO:0030335 positive regulation of cell migration
GO:0035425 autocrine signaling
GO:0038001 paracrine signaling
GO:0043086 negative regulation of catalytic activity
GO:0043312 neutrophil degranulation
GO:0043508 negative regulation of JUN kinase activity
GO:0045861 negative regulation of proteolysis
GO:0046718 viral entry into host cell

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0031410 cytoplasmic vesicle
GO:0031982 vesicle
GO:0035578 azurophil granule lumen
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AF428135 - Homo sapiens cell line CaSki SCCA1/SCCA2 fusion protein mRNA, complete cds.
AF428136 - Homo sapiens cell line PE/CA-PJ15 SCCA1/SCCA2 fusion protein mRNA, complete cds.
AF428137 - Homo sapiens cell line OE21 SCCA1/SCCA2 fusion protein mRNA, complete cds.
AF428138 - Homo sapiens cell line A549 SCCA1/SCCA2 fusion protein mRNA, complete cds.
AF428139 - Homo sapiens cell line RPMI12650 SCCA1/SCCA2 fusion protein mRNA, complete cds.
E03814 - DNA encoding squamous cell carcinoma(SCC) antigen protein.
S66896 - squamous cell carcinoma antigen=serine protease inhibitor [human, mRNA, 1711 nt].
AK222746 - Homo sapiens mRNA for serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 3 variant, clone: DMC07677.
AK222753 - Homo sapiens mRNA for serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 3 variant, clone: DMC05982.
AB046399 - Homo sapiens mRNA for SCCA1b, complete cds.
BC005224 - Homo sapiens serpin peptidase inhibitor, clade B (ovalbumin), member 3, mRNA (cDNA clone MGC:12244 IMAGE:4101988), complete cds.
BC008483 - Homo sapiens serpin peptidase inhibitor, clade B (ovalbumin), member 3, mRNA (cDNA clone IMAGE:4046591).
AK307261 - Homo sapiens cDNA, FLJ97209.
JD093498 - Sequence 74522 from Patent EP1572962.
JD306713 - Sequence 287737 from Patent EP1572962.
JD185129 - Sequence 166153 from Patent EP1572962.
JD333887 - Sequence 314911 from Patent EP1572962.
JD249346 - Sequence 230370 from Patent EP1572962.
JD478445 - Sequence 459469 from Patent EP1572962.
U19556 - Human squamous cell carcinoma antigen 1 (SCCA1) mRNA, complete cds.
JD161039 - Sequence 142063 from Patent EP1572962.
AY190327 - Homo sapiens SCCA-PD variant mRNA, complete cds.
EU852041 - Homo sapiens squamous cell carcinoma antigen-1 isoform SCCA-PD (SERPINB3) mRNA, complete cds.
AY245781 - Homo sapiens A53A squamous cell carcinoma antigen 1 (SERPINB3) mRNA, complete cds.
BT006748 - Homo sapiens serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 3 mRNA, complete cds.
DQ890560 - Synthetic construct clone IMAGE:100003190; FLH163944.01X; RZPDo839B01162D serpin peptidase inhibitor, clade B (ovalbumin), member 3 (SERPINB3) gene, encodes complete protein.
AJ515706 - Homo sapiens mRNA for squamous cell carcinoma antigen 1 (SERPINB3 gene).
AK314805 - Homo sapiens cDNA, FLJ95679, Homo sapiens serine (or cysteine) proteinase inhibitor, clade B(ovalbumin), member 3 (SERPINB3), mRNA.
KJ892093 - Synthetic construct Homo sapiens clone ccsbBroadEn_01487 SERPINB3 gene, encodes complete protein.
DQ893722 - Synthetic construct Homo sapiens clone IMAGE:100008182; FLH163940.01L; RZPDo839B01161D serpin peptidase inhibitor, clade B (ovalbumin), member 3 (SERPINB3) gene, encodes complete protein.
AB464197 - Synthetic construct DNA, clone: pF1KB6534, Homo sapiens SERPINB3 gene for serpin peptidase inhibitor, clade B (ovalbumin) member 3, without stop codon, in Flexi system.
CU675055 - Synthetic construct Homo sapiens gateway clone IMAGE:100017162 5' read SERPINB3 mRNA.
AY245778 - Homo sapiens A61 squamous cell carcinoma antigen 1 (SERPINB3) mRNA, partial cds.
AK308383 - Homo sapiens cDNA, FLJ98331.
AK310948 - Homo sapiens cDNA, FLJ17990.
JD418867 - Sequence 399891 from Patent EP1572962.
JD132873 - Sequence 113897 from Patent EP1572962.
JD193319 - Sequence 174343 from Patent EP1572962.
JD193318 - Sequence 174342 from Patent EP1572962.

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

Protein P29508 (Reactome details) participates in the following event(s):

R-HSA-6798751 Exocytosis of azurophil granule lumen proteins
R-HSA-6798695 Neutrophil degranulation
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A6NDM2, B2RBT5, B3W5Y6, ENST00000283752.1, ENST00000283752.2, ENST00000283752.3, ENST00000283752.4, ENST00000283752.5, ENST00000283752.6, ENST00000283752.7, ENST00000283752.8, ENST00000283752.9, NM_006919, P29508, Q53H28, Q53YB5, Q86VF3, Q86W04, Q8IWL4, Q8IXI3, Q96J21, Q9BYF8, SCCA, SCCA1, SPB3_HUMAN, uc317kde.1, uc317kde.2
UCSC ID: ENST00000283752.10_8
RefSeq Accession: NM_006919.3
Protein: P29508 (aka SPB3_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.