Q39: ICD10 Code for Congenital malformations of esophagus
Q39 is the ICD10 code used for documenting Congenital malformations of esophagus affecting the digestive system.

Q39 refers to Congenital malformations of esophagus, covering congenital defects affecting the mouth, esophagus, intestines, gallbladder, bile ducts, and liver that can impact digestion and nutrient absorption.
Symptoms
- Feeding difficulties – Especially in esophageal atresia (Q39)
- Vomiting and abdominal swelling – Due to intestinal blockages (Q41–Q42)
- Jaundice – Common with bile duct malformations (Q44)
- Swallowing or breathing issues – Related to mouth or pharyngeal anomalies (Q38)
- Growth retardation – Due to malabsorption or obstruction (Q43–Q45)
Diagnosis
Diagnosis typically involves prenatal imaging like ultrasound, postnatal physical examination, contrast studies (e.g., barium swallow), and sometimes surgical exploration for digestive system anomalies.
ICD10 Code Usage
ICD10 code Q39 is used to document congenital digestive defects for EHRs, surgical planning, medical coding, and early nutritional support programs.
Related Codes
- Q38 – Other congenital malformations of tongue, mouth and pharynx
- Q40 – Other congenital malformations of upper alimentary tract
- Q41 – Congenital absence, atresia and stenosis of small intestine
- Q42 – Congenital absence, atresia and stenosis of large intestine
- Q43 – Other congenital malformations of intestine
- Q44 – Congenital malformations of gallbladder, bile ducts and liver
- Q45 – Other congenital malformations of digestive system
FAQs
Q1: What is ICD10 code Q39?
A: It is used to document Congenital malformations of esophagus affecting the digestive tract or accessory organs.
Q2: Are congenital digestive anomalies life-threatening?
A: Some can be life-threatening without timely surgical or medical treatment.
Q3: How is esophageal atresia managed?
A: Surgical correction is typically performed soon after birth to restore feeding ability.
Q4: What is biliary atresia?
A: A blockage in the bile ducts that requires surgical intervention to prevent liver damage.
Q5: Can these conditions be detected before birth?
A: Yes, many major malformations are suspected during detailed prenatal ultrasound evaluations.
Conclusion
ICD10 code Q39 ensures accurate recording of Congenital malformations of esophagus, helping in early interventions, medical care coordination, and long-term digestive health outcomes for affected newborns.

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