Gene Gene information from NCBI Gene database.
Entrez ID 21
Gene name ATP binding cassette subfamily A member 3
Gene symbol ABCA3
Synonyms (NCBI Gene)
ABC-CABC3EST111653LBM180SMDP3
Chromosome 16
Chromosome location 16p13.3
Summary The membrane-associated protein encoded by this gene is a member of the superfamily of ATP-binding cassette (ABC) transporters. ABC proteins transport various molecules across extra- and intracellular membranes. ABC genes are divided into seven distinct
SNPs SNP information provided by dbSNP.
20
SNP ID Visualize variation Clinical significance Consequence
rs28936691 T>G Pathogenic Missense variant, coding sequence variant
rs45592239 G>A Uncertain-significance, likely-benign, conflicting-interpretations-of-pathogenicity Missense variant, coding sequence variant
rs45620539 G>A Uncertain-significance, conflicting-interpretations-of-pathogenicity Synonymous variant, coding sequence variant
rs121909181 C>T Pathogenic Coding sequence variant, stop gained
rs121909182 A>G Pathogenic Coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
36
miRTarBase ID miRNA Experiments Reference
MIRT016946 hsa-miR-335-5p Microarray 18185580
MIRT050565 hsa-miR-20a-5p CLASH 23622248
MIRT049276 hsa-miR-92a-3p CLASH 23622248
MIRT049276 hsa-miR-92a-3p CLASH 23622248
MIRT040559 hsa-miR-92b-3p CLASH 23622248
Transcription factors Transcription factors information provided by TRRUST V2 database.
2
Transcription factor Regulation Reference
SALL4 Activation 21526180;23432194
SALL4A Activation 21526180
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
66
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0005319 Function Lipid transporter activity IBA
GO:0005319 Function Lipid transporter activity IEA
GO:0005319 Function Lipid transporter activity TAS
GO:0005524 Function ATP binding IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
601615 33 ENSG00000167972
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q99758
Protein name Phospholipid-transporting ATPase ABCA3 (EC 7.6.2.1) (ABC-C transporter) (ATP-binding cassette sub-family A member 3) (ATP-binding cassette transporter 3) (ATP-binding cassette 3) (Xenobiotic-transporting ATPase ABCA3) (EC 7.6.2.2) [Cleaved into: 150 Kda m
Protein function Catalyzes the ATP-dependent transport of phospholipids such as phosphatidylcholine and phosphoglycerol from the cytoplasm into the lumen side of lamellar bodies, in turn participates in the lamellar bodies biogenesis and homeostasis of pulmonary
PDB 7W01 , 7W02
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF12698 ABC2_membrane_3 23 469 Family
PF00005 ABC_tran 549 693 ABC transporter Domain
PF12698 ABC2_membrane_3 923 1323 Family
PF00005 ABC_tran 1399 1543 ABC transporter Domain
Tissue specificity TISSUE SPECIFICITY: Expressed in brain, pancreas, skeletal muscle and heart (PubMed:8706931). Highly expressed in the lung in an AT2-cell-specific manner (PubMed:11718719, PubMed:8706931). Weakly expressed in placenta, kidney and liver (PubMed:8706931). A
Sequence
MAVLRQLALLLWKNYTLQKRKVLVTVLELFLPLLFSGILIWLRLKIQSENVPNATIYPGQ
SIQELPLFFTFPPPGDTWELAYIPSHSDAAKTVTETVRRALVINMRVRGFPSEKDFEDYI
RYDNCSSSVLAAVVFEHPFNHSKEPLPLAVKYHLRFSYTRRNYMWTQTGSFFLKETEGWH
TTSLFPLFPNPGPREPTSPDGGEPGYIREGFLAVQHAVDRAIMEYHADAATRQLFQRLTV
TIKRFPYPPFIADPFLVAIQYQLPLLLLLSFTYTALTIARAVVQEKERRLKEYMRMMGLS
SWLHWSAWFLLFFLFLLIAASFMTLLFCVKVKPNVAVLSRSDPSLVLAFLLCFAISTISF
SFMVSTFFSKANMAAAFGGFLYFFTYIPYFFVAPRYNWMTLSQKLCSCLLSNVAMAMGAQ
LIGKFEAKGMGIQWRDLLSPVNVDDDFCFGQVLGMLLLDSVLYGLVTWY
MEAVFPGQFGV
PQPWYFFIMPSYWCGKPRAVAGKEEEDSDPEKALRNEYFEAEPEDLVAGIKIKHLSKVFR
VGNKDRAAVRDLNLNLYEGQITVLLGHNGAGKTTTLSMLTGLFPPTSGRAYISGYEISQD
MVQIRKSLGLCPQHDILFDNLTVAEHLYFYAQLKGLSRQKCPEEVKQMLHIIGLEDKWNS
RSRFLSGGMRRKLSIGIALIAGSKVLILDEPTS
GMDAISRRAIWDLLQRQKSDRTIVLTT
HFMDEADLLGDRIAIMAKGELQCCGSSLFLKQKYGAGYHMTLVKEPHCNPEDISQLVHHH
VPNATLESSAGAELSFILPRESTHRFEGLFAKLEKKQKELGIASFGASITTMEEVFLRVG
KLVDSSMDIQAIQLPALQYQHERRASDWAVDSNLCGAMDPSDGIGALIEEERTAVKLNTG
LALHCQQFWAMFLKKAAYSWREWKMVAAQVLVPLTCVTLALLAINYSSELFDDPMLRLTL
GEYGRTVVPFSVPGTSQLGQQLSEHLKDALQAEGQEPREVLGDLEEFLIFRASVEGGGFN
ERCLVAASFRDVGERTVVNALFNNQAYHSPATALAVVDNLLFKLLCGPHASIVVSNFPQP
RSALQAAKDQFNEGRKGFDIALNLLFAMAFLASTFSILAVSERAVQAKHVQFVSGVHVAS
FWLSALLWDLISFLIPSLLLLVVFKAFDVRAFTRDGHMADTLLLLLLYGWAIIPLMYLMN
FFFLGAATAYTRLTIFNILSGIATFLMVTIMRIPAVKLEELSKTLDHVFLVLPNHCLGMA
VSSFYENYETRRYCTSSEVAAHYCKKYNIQYQENFYAWSAPGVGRFVASMAASGCAYLIL
LFL
IETNLLQRLRGILCALRRRRTLTELYTRMPVLPEDQDVADERTRILAPSPDSLLHTP
LIIKELSKVYEQRVPLLAVDRLSLAVQKGECFGLLGFNGAGKTTTFKMLTGEESLTSGDA
FVGGHRISSDVGKVRQRIGYCPQFDALLDHMTGREMLVMYARLRGIPERHIGACVENTLR
GLLLEPHANKLVRTYSGGNKRKLSTGIALIGEPAVIFLDEPST
GMDPVARRLLWDTVARA
RESGKAIIITSHSMEECEALCTRLAIMVQGQFKCLGSPQHLKSKFGSGYSLRAKVQSEGQ
QEALEEFKAFVDLTFPGSVLEDEHQGMVHYHLPGRDLSWAKVFGILEKAKEKYGVDDYSV
SQISLEQVFLSFAHLQPPTAEEGR
Sequence length 1704
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  ABC transporters   ABC transporters in lipid homeostasis
Defective ABCA3 causes pulmonary surfactant metabolism dysfunction type 3 (SMDP3)
Surfactant metabolism
Defective ABCA3 causes pulmonary surfactant metabolism dysfunction 3 (SMDP3)
Associated diseases Disease associations from ClinVar categorized as Causal (Pathogenic/Likely Pathogenic) or Unknown.
911
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
ABCA3-related disorder Pathogenic rs189077405, rs2505632878, rs2505637318, rs1233027765, rs2501017765 RCV003405727
RCV003397239
RCV003404598
RCV003404472
RCV003414392
Cervical cancer Likely pathogenic; Pathogenic rs149989682 RCV005892130
Congenital hyperammonemia, type I Likely pathogenic rs1460001890 RCV004813201
Diffuse interstitial pulmonary fibrosis Likely pathogenic; Pathogenic rs149989682, rs876657633 RCV000615487
RCV000215018
Unknown Diseases with uncertain, conflicting, or no pathogenic evidence in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Abnormal pulmonary interstitial morphology Uncertain significance rs369759665 RCV001815023
Acute myeloid leukemia Benign; Likely benign rs62040683 RCV005894428
Bullous lung disease Conflicting classifications of pathogenicity rs143008553 RCV003448905
Chromosome 22q11.2 deletion syndrome, distal Uncertain significance rs577998828 RCV003446925
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References
Adenocarcinoma Bronchiolo Alveolar Associate 38226623
Adrenal Cortex Diseases Associate 18603241
Allan Herndon Dudley syndrome Associate 18603241
Brachydactyly type A3 Inhibit 32532878
Brain Diseases Associate 18603241
Breast Neoplasms Associate 31146704, 32977823, 38019257
Bronchopulmonary Dysplasia Associate 18603241, 34465876
Congenital Deficiency of Pulmonary Surfactant Protein B Associate 23814005, 34449154
COVID 19 Associate 37795896
Critical Illness Associate 38275610