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Congenital factor II deficiency is an inherited bleeding disorder due to reduced activity of factor II (FII, prothrombin) and characterized by mucocutaneous bleeding symptoms.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Blood and immune system | 10 | Prolonged bleeding time, Gingival bleeding, Abnormal bleeding tendency (abnormal bleeding) |
Bones and joints | 1 | Joint hemorrhage |
Digestive system | 1 | Gastrointestinal hemorrhage |
Heart and blood vessels | 1 | Intracranial hemorrhage |
Kidneys and urinary system | 1 | Microscopic hematuria |
The clinical expression of prothrombin thrombophilia is variable. Many individuals who are heterozygous or homozygous for the F2 variant never develop thrombosis. While most individuals with prothrombin thrombophilia do not experience a first thrombotic event until adulthood, some have recurrent VTE before age 30 years.
The primary clinical manifestation of prothrombin thrombophilia is VTE. The relative risk for VTE is increased two- to fivefold in 20210GA heterozygotes . Deep-vein thrombosis (DVT) and pulmonary embolism (PE) are the most common VTE. The most common site for DVT is the legs, but upper-extremity thrombosis also occurs.
Source: GeneReviews — "Prothrombin Thrombophilia"
F2 encodes coagulation factor II, thrombin (622 aa). Thrombin, which cleaves bonds after Arg and Lys, converts fibrinogen to fibrin and activates factors V, VII, VIII, XIII, and, in complex with thrombomodulin, protein C. Highest expression in Liver (599.6 TPM) and Brain Cerebellar Hemisphere (1.7 TPM).
Congenital prothrombin deficiency is caused by mutations in the F2 gene on chromosome 11.
The F2 protein participates in Synthesis of PB1-F2 pathway.
F2 is classified as a druggable target (Druggable Genome, Enzyme, External Side Of Plasma Membrane, Growth Factor, and Protease categories) with score 2.7.
No genotype-phenotype correlations have been identified for other F2 variants.
Source: GeneReviews — "Prothrombin Thrombophilia"
No clinical features are specific for prothrombin thrombophilia. The diagnosis should be suspected in individuals with at least one of the following more specific findings:
A first unprovoked venous thromboembolism (VTE) before age 50 years
A history of recurrent VTE
Venous thrombosis at certain unusual sites such as the cerebral, mesenteric, portal, or hepatic veins
VTE during pregnancy or the puerperium
VTE associated with the use of estrogen-containing oral contraceptives or hormone replacement therapy (HRT)
An unprovoked VTE at any age in an individual with a first-degree family member with a VTE before age 50 years
Prothrombin thrombophilia testing may be considered in individuals who have less specific findings, including the following:
Source: GeneReviews — "Prothrombin Thrombophilia"
The differential diagnosis of venous thromboembolism (VTE) includes several other inherited thrombophilic disorders (discussed here) and acquired thrombophilic disorders (outside of the scope of this GeneReview). Factor V Leiden refers to the specific G-to-A substitution in F5 that predicts a single amino-acid replacement (Arg506Gln) that destroys a cleavage site for activated protein C. Factor V Leiden thrombophilia (the most common inherited form of thrombophilia) is characterized by a poor anticoagulant response to activated protein C and an increased risk for VTE. Deep vein thrombosis (DVT) is the most common VTE, with the legs being the most common site.
Source: GeneReviews — "Prothrombin Thrombophilia"
Genetic testing for F2 is available. Testing is considered confirmatory for diagnosis.
Biomarker and diagnostic research for congenital prothrombin deficiency has been reported in the published literature.
No approved treatments are currently available for congenital prothrombin deficiency. The disease remains an area of unmet medical need.
To assess the risk for venous thromboembolism (VTE) in an individual found to have the F2 variant, the following are recommended:
An activated protein C resistance or DNA assay for factor V Leiden
Serologic assays for anticardiolipin antibodies and anti-beta2 glycoprotein 1 antibodies
Multiple phospholipid-dependent coagulation assays for a lupus inhibitor
For high-risk individuals (e.g., those with a history of recurrent VTE, especially at a young age, or those with strong family history of VTE at a young age), evaluation should also include assays of the following:
Protein C activity
Antithrombin activity
Protein S activity or free protein S antigen
Note: Measurement of the following is NOT recommended:
Plasma concentration of homocysteine, since no data support a change in duration of anticoagulation or the use of vitamin supplementation in individuals with hyperhomocysteinemia and a history of VTE
MTHFR variants, as no clinical rationale for this testing exists
Factor VIII and other clotting factor levels
Treatment of Manifestations
The management of thrombosis in individuals with prothrombin thrombophilia depends on the clinical circumstances. The first acute thrombosis should be treated according to standard guidelines . For initial treatment of VTE, current guidelines suggest a direct oral anticoagulant (dabigatran, edoxaban, rivaroxaban, or apixaban) over warfarin because of a lower bleeding risk and greater co...
Source: GeneReviews — "Prothrombin Thrombophilia"
Women with a history of VTE who are heterozygous for 20210GA should avoid estrogen-containing contraception and hormone replacement therapy (HRT). Women homozygous for 20210GA with or without prior VTE should avoid estrogen-containing contraception and HRT. Asymptomatic women heterozygous for 20210GA:
Should be counseled on the risks of estrogen-containing contraception and HRT use and should be encouraged to consider alternative forms of contraception and control of menopausal symptoms;
Electing to use oral contraceptives should avoid third-generation and other progestins with a higher thrombotic risk;
Electing short-term hormone replacement therapy for severe menopausal symptoms should use a low-dose transdermal preparation, which has a lower thrombotic risk than oral formulations .
Source: GeneReviews — "Prothrombin Thrombophilia"
Search ClinicalTrials.gov in the US and EU Clinical Trials Register in Europe for access to information on clinical studies for a wide range of diseases and conditions.
Source: GeneReviews — "Prothrombin Thrombophilia"
View trials for congenital prothrombin deficiency
Individuals receiving long-term anticoagulation require periodic reevaluation to confirm that the benefits of anticoagulation continue to outweigh the risk of bleeding. 20210GA heterozygotes who do not require long-term anticoagulation may benefit from evaluation prior to exposure to circumstantial risk factors such as surgery or pregnancy .
Source: GeneReviews — "Prothrombin Thrombophilia"
Phenotype severity distribution: 3 very common features, 4 common features.
Estimated prevalence: <1 in 1,000,000 (VERY_RARE).
No clinical trials have been registered for congenital prothrombin deficiency.
63 publications have been identified in PubMed for congenital prothrombin deficiency. Research spans Basic Science / Preclinical (46%), Case Report / Case Series (35%), and Review / Meta-Analysis (10%).
Research Type | Count | % of Total |
|---|---|---|
Laboratory research | 29 | 46% |
Patient case studies | 22 | 35% |
Research summaries | 6 | 10% |
Disease patterns and progression | 3 | 5% |
Other research | 1 | 2% |
Testing and diagnosis research | 1 | 2% |
Clinical study results | 1 | 2% |
Wang HF (2026). [PMID: 41507036](https://pubmed.ncbi.nlm.nih.gov/41507036/). *American journal of health-system pharmacy : AJHP : official journal of the American Society of Health-System Pharmacists*. [Case Report / Case Series]
Barcellona D (2026). [PMID: 40719111](https://pubmed.ncbi.nlm.nih.gov/40719111/). *Seminars in thrombosis and hemostasis*. [Case Report / Case Series]
López-Sampere Y (2026). [PMID: 41650822](https://pubmed.ncbi.nlm.nih.gov/41650822/). *Redox biology*. [Basic Science / Preclinical]
Sakamoto R (2026). [PMID: 41795477](https://pubmed.ncbi.nlm.nih.gov/41795477/). *Auris, nasus, larynx*. [Case Report / Case Series]
Wu Y (2026). [PMID: 41548594](https://pubmed.ncbi.nlm.nih.gov/41548594/). *Life sciences*. [Basic Science / Preclinical]
Iarossi M (2026). [PMID: 41736117](https://pubmed.ncbi.nlm.nih.gov/41736117/). *Thrombosis journal*. [Case Report / Case Series]
Ismail A (2026). [PMID: 41728562](https://pubmed.ncbi.nlm.nih.gov/41728562/). *Cureus*. [Review / Meta-Analysis]
Shang W (2026). [PMID: 41051236](https://pubmed.ncbi.nlm.nih.gov/41051236/). *Laboratory medicine*. [Case Report / Case Series]
Haisma B (2026). [PMID: 41443372](https://pubmed.ncbi.nlm.nih.gov/41443372/). *Journal of thrombosis and haemostasis : JTH*. [Case Report / Case Series]
Siegemund A (2026). [PMID: 41769318](https://pubmed.ncbi.nlm.nih.gov/41769318/). *Research and practice in thrombosis and haemostasis*. [Case Report / Case Series]
Data assembled from 8 of 12 sources · Last updated Sep 19, 2026, 11:53 AM UTC
Online Mendelian Inheritance in Man
European rare disease database
Genetic and Rare Diseases Info Center