FGFBP3

fibroblast growth factor binding protein 3

Basic information

Region (hg38): 10:91906584-91909486

Previous symbols: [ "C10orf13" ]

Links

ENSG00000174721 ∙ NCBI:143282 ∙ ∙ HGNC:23428 ∙ Uniprot:Q8TAT2 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the FGFBP3 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the FGFBP3 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			38	1		39
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	38	1	0

Variants in FGFBP3

This is a list of pathogenic ClinVar variants found in the FGFBP3 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
10-91908209-T-C		not specified	Uncertain significance (Dec 18, 2023)
10-91908230-G-A		not specified	Uncertain significance (Apr 19, 2024)
10-91908241-C-G		not specified	Uncertain significance (Nov 26, 2024)
10-91908243-C-T		not specified	Uncertain significance (Mar 28, 2024)
10-91908292-G-T		not specified	Uncertain significance (Dec 02, 2022)
10-91908300-C-G		not specified	Uncertain significance (Oct 03, 2022)
10-91908321-C-T		not specified	Uncertain significance (Nov 08, 2024)
10-91908335-G-A		not specified	Uncertain significance (May 25, 2022)
10-91908356-T-C		not specified	Uncertain significance (Jul 19, 2023)
10-91908375-G-C		not specified	Uncertain significance (Aug 21, 2023)
10-91908417-C-G		not specified	Uncertain significance (Jan 09, 2024)
10-91908434-C-G		not specified	Likely benign (Dec 03, 2024)
10-91908440-C-G		not specified	Uncertain significance (Dec 17, 2023)
10-91908452-C-G		not specified	Uncertain significance (Nov 25, 2024)
10-91908462-C-A		not specified	Uncertain significance (Sep 26, 2023)
10-91908464-C-G		not specified	Uncertain significance (Jan 09, 2024)
10-91908483-C-T		not specified	Uncertain significance (Aug 01, 2024)
10-91908513-G-A		not specified	Uncertain significance (Nov 23, 2021)
10-91908578-T-C		not specified	Uncertain significance (May 17, 2023)
10-91908602-G-A		not specified	Uncertain significance (Jan 06, 2023)
10-91908604-C-A		not specified	Uncertain significance (Dec 16, 2023)
10-91908605-C-A		not specified	Uncertain significance (Feb 04, 2025)
10-91908608-C-A		not specified	Uncertain significance (Dec 01, 2022)
10-91908617-C-A		not specified	Uncertain significance (Dec 02, 2021)
10-91908635-T-C		not specified	Uncertain significance (Sep 16, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
FGFBP3	protein_coding	protein_coding	ENST00000311575	1	2895

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00103	0.386	118258	0	4	118262	0.0000169

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.662	119	100	1.19	0.00000466	1566
Missense in Polyphen		28	25.805	1.085		473
Synonymous	-0.424	52	48.3	1.08	0.00000246	585
Loss of Function	-0.335	4	3.34	1.20	1.42e-7	61

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000380	0.0000380
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000293	0.0000278
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Heparin-binding protein which binds to FGF2, prevents binding of FGF2 to heparin and probably inhibits immobilization of FGF2 on extracellular matrix glycosaminoglycans, allowing its release and subsequent activation of FGFR signaling which leads to increased vascular permeability. {ECO:0000269|PubMed:18669637}.
• Pathway: FGFR2b ligand binding and activation;FGFR2 ligand binding and activation;Signaling by FGFR2;Signal Transduction;Signaling by FGFR;Signaling by Receptor Tyrosine Kinases (Consensus)

Recessive Scores

• pRec: 0.0930

Haploinsufficiency Scores

• pHI: 0.120
• hipred: N
• hipred_score: 0.204
• ghis: 0.409

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0155

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Fgfbp3
• Phenotype: behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Gene ontology

• Biological process: cell-cell signaling;positive regulation of vascular permeability;positive regulation of fibroblast growth factor receptor signaling pathway
• Cellular component: extracellular region;collagen-containing extracellular matrix
• Molecular function: heparin binding;fibroblast growth factor binding