Human Gene FCN2 (ENST00000291744.11_5) from GENCODE V47lift37
  Description: ficolin 2, transcript variant SV0 (from RefSeq NM_004108.3)
Gencode Transcript: ENST00000291744.11_5
Gencode Gene: ENSG00000160339.16_7
Transcript (Including UTRs)
   Position: hg19 chr9:137,772,656-137,779,369 Size: 6,714 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr9:137,772,668-137,779,261 Size: 6,594 Coding Exon Count: 8 

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 (chr9:137,772,656-137,779,369)mRNA (may differ from genome)Protein (313 aa)
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-  Comments and Description Text from UniProtKB
  ID: FCN2_HUMAN
DESCRIPTION: RecName: Full=Ficolin-2; AltName: Full=37 kDa elastin-binding protein; AltName: Full=Collagen/fibrinogen domain-containing protein 2; AltName: Full=EBP-37; AltName: Full=Ficolin-B; AltName: Full=Ficolin-beta; AltName: Full=Hucolin; AltName: Full=L-ficolin; AltName: Full=Serum lectin p35; Flags: Precursor;
FUNCTION: May function in innate immunity through activation of the lectin complement pathway. Calcium-dependent and GlcNAc- binding lectin. Enhances phagocytosis of S.typhimurium by neutrophils, suggesting an opsonic effect via the collagen region.
SUBUNIT: Homopolymer; disulfide-linked. Interacts with elastin. Interacts with MASP1 and MASP2.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Expressed by the liver and secreted in plasma.
DOMAIN: The fibrinogen-like domain (FBG) contains potential calcium-binding sites that may be involved in carbohydrate binding.
SIMILARITY: Belongs to the ficolin lectin family.
SIMILARITY: Contains 1 collagen-like domain.
SIMILARITY: Contains 1 fibrinogen C-terminal domain.

-  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: FCN2
Diseases sorted by gene-association score: adenoiditis (22), progressive relapsing multiple sclerosis (12), rheumatic fever (9)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 20.76 RPKM in Liver
Total median expression: 54.57 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
3' UTR -38.50108-0.356 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
IPR008160 - Collagen
IPR002181 - Fibrinogen_a/b/g_C
IPR014716 - Fibrinogen_a/b/g_C_1
IPR014715 - Fibrinogen_a/b/g_C_2
IPR020837 - Fibrinogen_CS

Pfam Domains:
PF00147 - Fibrinogen beta and gamma chains, C-terminal globular domain
PF01391 - Collagen triple helix repeat (20 copies)

SCOP Domains:
56496 - Fibrinogen C-terminal domain-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2J0G - X-ray MuPIT 2J0H - X-ray MuPIT 2J0Y - X-ray MuPIT 2J1G - X-ray MuPIT 2J2P - X-ray MuPIT 2J3F - X-ray MuPIT 2J3G - X-ray MuPIT 2J3O - X-ray MuPIT 2J3U - X-ray MuPIT 2J61 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q15485
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003823 antigen binding
GO:0004252 serine-type endopeptidase activity
GO:0005515 protein binding
GO:0030246 carbohydrate binding
GO:0043394 proteoglycan binding
GO:0046872 metal ion binding
GO:0048306 calcium-dependent protein binding
GO:2001065 mannan binding

Biological Process:
GO:0001867 complement activation, lectin pathway
GO:0002376 immune system process
GO:0006508 proteolysis
GO:0006956 complement activation
GO:0008228 opsonization
GO:0043654 recognition of apoptotic cell
GO:0045087 innate immune response
GO:0050829 defense response to Gram-negative bacterium
GO:0050830 defense response to Gram-positive bacterium

Cellular Component:
GO:0005576 extracellular region
GO:0005581 collagen trimer
GO:0070062 extracellular exosome
GO:0072562 blood microparticle


-  Descriptions from all associated GenBank mRNAs
  AK290843 - Homo sapiens cDNA FLJ75924 complete cds, highly similar to Homo sapiens ficolin (collagen/fibrinogen domain containing lectin)2 (hucolin) (FCN2), transcript variant SV0, mRNA.
BC113935 - Homo sapiens ficolin (collagen/fibrinogen domain containing lectin) 2 (hucolin), mRNA (cDNA clone IMAGE:40069277), complete cds.
BC069572 - Homo sapiens ficolin (collagen/fibrinogen domain containing lectin) 2 (hucolin), mRNA (cDNA clone MGC:97173 IMAGE:7262417), complete cds.
BC069825 - Homo sapiens ficolin (collagen/fibrinogen domain containing lectin) 2 (hucolin), mRNA (cDNA clone MGC:97184 IMAGE:7262429), complete cds.
D49353 - Homo sapiens mRNA for serum lectin P35, complete cds.
JB054537 - Sequence 1 from Patent WO2012136585.
E10706 - cDNA encoding 35kD protein having opsonin activity,P35.
AK308476 - Homo sapiens cDNA, FLJ98517.
JD436298 - Sequence 417322 from Patent EP1572962.
AB590757 - Synthetic construct DNA, clone: pFN21AE1796, Homo sapiens FCN2 gene for ficolin (collagen/fibrinogen domain containing lectin) 2, without stop codon, in Flexi system.
JD218650 - Sequence 199674 from Patent EP1572962.
JD480318 - Sequence 461342 from Patent EP1572962.
LF346361 - JP 2014500723-A/153864: Polycomb-Associated Non-Coding RNAs.
JD561553 - Sequence 542577 from Patent EP1572962.
JD197018 - Sequence 178042 from Patent EP1572962.
JD275151 - Sequence 256175 from Patent EP1572962.
JD388644 - Sequence 369668 from Patent EP1572962.
JD242280 - Sequence 223304 from Patent EP1572962.
MA581938 - JP 2018138019-A/153864: Polycomb-Associated Non-Coding RNAs.

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

Protein Q15485 (Reactome details) participates in the following event(s):

R-HSA-2855054 Ficolin-2 binds to molecular patterns on the target cell surface
R-HSA-166726 Activation of MASPs
R-HSA-166753 Conversion of C4 into C4a and C4b
R-HSA-166792 Conversion of C2 into C2a and C2b
R-HSA-2855086 Ficolins bind to repetitive carbohydrate structures on the target cell surface
R-HSA-166662 Lectin pathway of complement activation
R-HSA-166786 Creation of C4 and C2 activators
R-HSA-166663 Initial triggering of complement
R-HSA-166658 Complement cascade
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A6NFG7, A8K478, ENST00000291744.1, ENST00000291744.10, ENST00000291744.2, ENST00000291744.3, ENST00000291744.4, ENST00000291744.5, ENST00000291744.6, ENST00000291744.7, ENST00000291744.8, ENST00000291744.9, FCN2_HUMAN, FCNL, NM_004108, Q15485, Q6IS69, Q7M4P4, Q9UC57, uc317kza.1, uc317kza.2
UCSC ID: ENST00000291744.11_5
RefSeq Accession: NM_004108.3
Protein: Q15485 (aka FCN2_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.