ABCA3
ATP binding cassette subfamily A member 3 | ABC-C, EST111653, LBM180, ABC3

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 subfamilies (ABC1, MDR/TAP, MRP, ALD, OABP, GCN20, White). This protein is a member of the ABC1 subfamily. Members of the ABC1 subfamily comprise the only major ABC subfamily found exclusively in multicellular eukaryotes. The full transporter encoded by this gene may be involved in development of resistance to xenobiotics and engulfment during programmed cell death. [provided by RefSeq, Jul 2008]

Developmental clusters: GC1
Biological processes 60 terms
ABC-type transporter activity (GO:0140359)ABC-type xenobiotic transporter activity (GO:0008559)ABC-type xenobiotic transporter activity (GO:0008559)ATP binding (GO:0005524)ATP hydrolysis activity (GO:0016887)ATP hydrolysis activity (GO:0016887)ATPase-coupled intramembrane lipid carrier activity (GO:0140326)ATPase-coupled transmembrane transporter activity (GO:0042626)alveolar lamellar body (GO:0097208)alveolar lamellar body membrane (GO:0097233)alveolar lamellar body membrane (GO:0097233)cytoplasm (GO:0005737)cytoplasmic vesicle membrane (GO:0030659)cytoplasmic vesicle membrane (GO:0030659)endomembrane system (GO:0012505)extracellular region (GO:0005576)intracellular membrane-bounded organelle (GO:0043231)lamellar body (GO:0042599)lamellar body membrane (GO:0097232)lamellar body membrane (GO:0097232)late endosome (GO:0005770)late endosome membrane (GO:0031902)lipid carrier activity (GO:0005319)lipid carrier activity (GO:0005319)lipid translocation (GO:0034204)lipid transport (GO:0006869)lipid transport (GO:0006869)lipid transport (GO:0006869)lung development (GO:0030324)lung development (GO:0030324)lysosomal membrane (GO:0005765)membrane (GO:0016020)multivesicular body membrane (GO:0032585)organelle assembly (GO:0070925)phosphatidylcholine flippase activity (GO:0140345)phosphatidylcholine metabolic process (GO:0046470)phosphatidylcholine metabolic process (GO:0046470)phosphatidylcholine metabolic process (GO:0046470)phosphatidylcholine transfer activity (GO:0120019)phosphatidylglycerol metabolic process (GO:0046471)phosphatidylglycerol metabolic process (GO:0046471)phospholipid homeostasis (GO:0055091)phospholipid transport (GO:0015914)plasma membrane (GO:0005886)positive regulation of cholesterol efflux (GO:0010875)positive regulation of phospholipid efflux (GO:1902995)positive regulation of phospholipid transport (GO:2001140)positive regulation of protein homooligomerization (GO:0032464)positive regulation of vesicle fusion (GO:0031340)regulation of lipid biosynthetic process (GO:0046890)regulation of lipid transport (GO:0032368)regulation of phosphatidylcholine metabolic process (GO:0150172)response to glucocorticoid (GO:0051384)response to xenobiotic stimulus (GO:0009410)surfactant homeostasis (GO:0043129)surfactant homeostasis (GO:0043129)transmembrane transport (GO:0055085)xenobiotic export from cell (GO:0046618)xenobiotic transmembrane transport (GO:0006855)xenobiotic transport (GO:0042908)
Expression (TPM)
ABCA3 — as a Regulated Gene

TFs regulating ABCA3 0 TFs

Transcription factors with Perturb-seq knockdown data for ABCA3. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = ABCA3 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to ABCA3

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of ABCA3, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Accessibility Element Dist. to TSS Link type TFs
chr16:2,047,366–2,048,252 292.9 kb Distal (>10kb) Multiome 875
chr16:2,090,476–2,092,232 249.4 kb Distal (>10kb) Multiome 344
chr16:2,135,536–2,136,505 204.6 kb Distal (>10kb) Multiome 263
chr16:2,147,864–2,149,260 192.3 kb Distal (>10kb) Multiome 679
chr16:2,149,550–2,152,180 189.7 kb Distal (>10kb) Multiome 618
chr16:2,152,861–2,153,999 187.1 kb Distal (>10kb) Multiome 734
chr16:2,154,834–2,156,329 185.2 kb Distal (>10kb) Multiome 932
chr16:2,178,140–2,179,722 161.9 kb Distal (>10kb) Multiome 318
chr16:2,205,129–2,206,297 135.2 kb Distal (>10kb) Multiome 887
chr16:2,214,212–2,215,803 125.7 kb Distal (>10kb) Multiome 953
chr16:2,223,095–2,224,285 117.3 kb Distal (>10kb) Multiome 918
chr16:2,251,044–2,252,460 89.1 kb Distal (>10kb) Multiome 996
chr16:2,267,625–2,269,111 72.5 kb Distal (>10kb) Multiome 1044
chr16:2,339,631–2,342,283 96 bp At TSS Multiome 1129
chr16:2,428,282–2,429,948 88.5 kb Distal (>10kb) Multiome HiCAR 827
chr16:2,459,524–2,460,612 119.3 kb Distal (>10kb) Multiome 670
chr16:2,467,565–2,468,324 127.1 kb Distal (>10kb) Multiome 450
chr16:2,470,913–2,472,223 130.6 kb Distal (>10kb) Multiome 427
chr16:2,473,455–2,476,127 134.4 kb Distal (>10kb) Multiome 719
chr16:2,501,124–2,501,877 160.7 kb Distal (>10kb) Multiome 471
chr16:2,513,006–2,514,809 173.0 kb Distal (>10kb) Multiome 818
chr16:2,520,064–2,520,618 179.6 kb Distal (>10kb) Multiome 624
chr16:2,531,456–2,533,080 191.4 kb Distal (>10kb) Multiome 883
chr16:2,537,433–2,538,433 197.1 kb Distal (>10kb) Multiome 498
chr16:2,603,176–2,603,939 262.7 kb Distal (>10kb) Multiome 1066

Genome Browser

Genomic view of the ABCA3 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.

chr16:2,037,366 – 2,613,939
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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