BLVRA
protein-codingbiliverdin reductase A
Gene summary
The protein encoded by this gene belongs to the biliverdin reductase family, members of which catalyze the conversion of biliverdin to bilirubin in the presence of NADPH or NADH. Mutations in this gene are associated with hyperbiliverdinemia. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2011]
- BLVR
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~48.7 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AD
Disease ID:MONDO:0013595
Submitter: Orphanet
Inheritance Pattern: Unknown
Disease ID:MONDO:0013595
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AD
Disease ID:MONDO:0013595
Submitter: PanelApp Australia
Inheritance Pattern: AD
Disease ID:MONDO:0013595
Submitter: Ambry Genetics
Inheritance Pattern: AR
Disease ID:MONDO:0013595
Submitter: ClinGen
*BLVRA* enocdes Biliverdin reductase A (BVR-A) and was first reported in relation to hyperbiliverdemia by Gafvels et al. (2009). Abnormality of heme degradation pathway, especially of the enzyme biliverdin reductase responsible for the conversion of biliverdin to bilirubin, leads to the appearance of hyperbiliverdinemia. The accumulation of biliverdin in the plasma appears with greenish coloration of the skin, urine, or tissues. Apart from enzyme defects, hyperbiliverdinemia may also be caused by liver dysfunction or decompensated liver cirrhosis, through hepatocellular damage, thereby impairing the processing and excretion of bilirubin into the blood and contributing to elevated biliverdin levels. Homozygous mutations in the BLVRA gene cause this disease. **Summary of Case Level Data (4.5 points):** 2 probands were scored with 1 nonsense variant (PMID: 21278388). **Summary of Experimental Evidence (4.5 points):** Human biliverdin IXalpha reductase (BVR) was cloned, sequenced, and characterized, revealing its dual pH and cofactor dependence, Zn metalloprotein nature, and similarity to rat BVR, with distinct differences in cofactor use and charge variants (PMID: 8631357). Bilirubin, a heme catabolism by-product antioxidant, reduced oxidative stress in vivo, as indicated by markers of oxidative stress were increased in Bvra–/– mice with low bilirubin levels. The study generated and characterized Bvra–/– mice, lacking biliverdin reductase-a, which caused plasma biliverdin to be elevated while plasma bilirubin was nearly undetectable and bile was green, mimicking "green jaundice". Such mice exhibited higher oxidative stress, marked by increased plasma CE-OOH and oxidized erythrocyte Prx2, indicating the physiological antioxidant role of bilirubin (PMID: 29195835). The accumulation of bile acids in cholestasis, leading to oxidative stress, was further linked to BVRα deficiency, which causes green jaundice; however, biliverdin (BV) still provides antioxidant protection independent of BVRα, without significantly affecting oxidative stress or cell death in the presence of deoxycholic acid (PMID: 27387768). In summary, experimental and clinical evidence supports a moderate gene- disease relationship between *BLVRA* and autosomal recessive Hyperbiliverdinemia. While more evidence is required to meet a definitive classification, no contradictory evidence has been identified. This classification was approved by the ClinGen IEM GCEP on January 10, 2025 (SOP Version 11).
Clinical Genomic Database (CGD)
Manifestation: Gastrointestinal
Intervention: General
Rationale: Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing
Comments: Appropriate hepatic-related care may be beneficial, but the advantage of genetic diagnosis is unclear; Individuals with heterozygous variants have been reported as manifesting with clinical signs in the context of (apparently unrelated) liver dysfunction
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to BLVRA variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_000712.4. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 1 | 7 | 3 | 11 | ||
| missense | 45 | 5 | 4 | 54 | ||
| nonsense | 2 | 2 | 4 | |||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| splice donor/acceptor (+/-2bp) | 3 | 3 | ||||
| Total | 2 | 2 | 49 | 12 | 7 | 72 |
Highest pathogenic variant AF is 0.000037801794
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_000703.2 | 7 | MANE Select | |
| Ensembl | ENSP00000265523.4 | 7 | MANE Select | |
| RefSeq | NP_001240752.1 | 7 | Standard | |
| Ensembl | ENSP00000385757.1 | 7 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Porphyrin and chlorophyll metabolism - Homo sapiens (human)
- Hereditary Coproporphyria (HCP)
- Porphyria Variegata (PV)
- Congenital Erythropoietic Porphyria (CEP) or Gunther Disease
- Acute Intermittent Porphyria
Biological Process
- heme catabolic process
- oxidation-reduction process
Molecular Function
- biliverdin reductase activity
- protein binding
- zinc ion binding
Cellular Component
- cytosol
- extracellular exosome
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000402924
- Coding exons
- 7
- Length
- 48661
- Individuals with no LoFs
- 125697
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 50
- Defined
- 125747
- p
- 0.000199
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 0.346 | 147 | 159 | 0.923 | 0.00000929 | 1925 |
| Missense (PolyPhen) | 52 | 62.449 | 0.83268 | 726 | ||
| Synonymous | 1.34 | 53 | 66.9 | 0.792 | 0.00000418 | 569 |
| Loss of Function | 1.79 | 8 | 15.7 | 0.511 | 9.42e-7 | 174 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0 | 0.0 | absent |
| Latino/Admixed American | 0.000087 | 0.000087 | rare |
| Ashkenazi Jewish | 0.000099 | 0.000099 | rare |
| East Asian | 0.000054 | 0.000054 | rare |
| Finnish | 0.00097 | 0.00097 | rare |
| European (Non-Finnish) | 0.00020 | 0.00020 | rare |
| South Asian | 0.000033 | 0.000033 | rare |
| Other | 0 | 0.0 | absent |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Reduces the gamma-methene bridge of the open tetrapyrrole, biliverdin IX alpha, to bilirubin with the concomitant oxidation of a NADH or NADPH cofactor.;
Recessive Scores
- pRec
- 0.127
Intolerance Scores
- LoFtool
- 0.632
- RVIS EVS
- 0.06
- RVIS percentile EVS
- 58.74
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.701
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |