BECN1

beclin 1 | ATG6, VPS30

This gene encodes a protein that regulates autophagy, a catabolic process of degradation induced by starvation. The encoded protein is a component of the phosphatidylinositol-3-kinase (PI3K) complex which mediates vesicle-trafficking processes. This protein is thought to play a role in multiple cellular processes, including tumorigenesis, neurodegeneration and apoptosis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2015]

Biological processes 102 terms

GTPase binding (GO:0051020)Golgi apparatus (GO:0005794)JNK cascade (GO:0007254)SMAD protein signal transduction (GO:0060395)autophagosome (GO:0005776)autophagosome (GO:0005776)autophagosome assembly (GO:0000045)autophagosome assembly (GO:0000045)autophagosome assembly (GO:0000045)autophagosome assembly (GO:0000045)autophagosome maturation (GO:0097352)autophagy (GO:0006914)autophagy (GO:0006914)autophagy (GO:0006914)autophagy (GO:0006914)cellular defense response (GO:0006968)cellular response to aluminum ion (GO:0071275)cellular response to amino acid starvation (GO:0034198)cellular response to copper ion (GO:0071280)cellular response to epidermal growth factor stimulus (GO:0071364)cellular response to glucose starvation (GO:0042149)cellular response to glucose starvation (GO:0042149)cellular response to hydrogen peroxide (GO:0070301)cellular response to nitrogen starvation (GO:0006995)cellular response to oxygen-glucose deprivation (GO:0090650)circadian rhythm (GO:0007623)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasmic pattern recognition receptor signaling pathway (GO:0002753)cytoplasmic side of mitochondrial outer membrane (GO:0032473)cytoplasmic vesicle (GO:0031410)cytosol (GO:0005829)cytosol (GO:0005829)dendrite (GO:0030425)early endosome to late endosome transport (GO:0045022)early endosome to late endosome transport (GO:0045022)endoplasmic reticulum (GO:0005783)endoplasmic reticulum membrane (GO:0005789)endosome (GO:0005768)endosome (GO:0005768)endosome membrane (GO:0010008)engulfment of apoptotic cell (GO:0043652)identical protein binding (GO:0042802)late endosome to vacuole transport (GO:0045324)macroautophagy (GO:0016236)macroautophagy (GO:0016236)macroautophagy (GO:0016236)mitochondrial membrane (GO:0031966)mitochondrion (GO:0005739)mitochondrion (GO:0005739)mitophagy (GO:0000423)mitophagy (GO:0000423)mitotic metaphase chromosome alignment (GO:0007080)molecular adaptor activity (GO:0060090)negative regulation of apoptotic process (GO:0043066)negative regulation of apoptotic process (GO:0043066)negative regulation of lysosome organization (GO:1905672)negative regulation of programmed cell death (GO:0043069)nuclear body (GO:0016604)nucleus (GO:0005634)p38MAPK cascade (GO:0038066)phagocytic vesicle (GO:0045335)phagophore assembly site (GO:0000407)phosphatidylinositol 3-kinase binding (GO:0043548)phosphatidylinositol 3-kinase binding (GO:0043548)phosphatidylinositol 3-kinase complex, class III (GO:0035032)phosphatidylinositol 3-kinase complex, class III (GO:0035032)phosphatidylinositol 3-kinase complex, class III, type I (GO:0034271)phosphatidylinositol 3-kinase complex, class III, type II (GO:0034272)phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)positive regulation of attachment of mitotic spindle microtubules to kinetochore (GO:1902425)positive regulation of autophagosome assembly (GO:2000786)positive regulation of autophagy (GO:0010508)positive regulation of autophagy (GO:0010508)positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (GO:0051897)positive regulation of stress granule assembly (GO:0062029)protein binding (GO:0005515)protein kinase binding (GO:0019901)protein targeting to lysosome (GO:0006622)protein-containing complex (GO:0032991)protein-containing complex assembly (GO:0065003)protein-macromolecule adaptor activity (GO:0030674)protein-macromolecule adaptor activity (GO:0030674)protein-macromolecule adaptor activity (GO:0030674)receptor catabolic process (GO:0032801)receptor catabolic process (GO:0032801)regulation of autophagy (GO:0010506)regulation of cytokinesis (GO:0032465)regulation of macroautophagy (GO:0016241)response to hypoxia (GO:0001666)response to iron(II) ion (GO:0010040)response to lead ion (GO:0010288)response to mitochondrial depolarisation (GO:0098780)response to nutrient levels (GO:0031667)response to vitamin E (GO:0033197)response to xenobiotic stimulus (GO:0009410)trans-Golgi network (GO:0005802)ubiquitin protein ligase binding (GO:0031625)ubiquitin protein ligase binding (GO:0031625)

Expression (TPM)

TFs regulating BECN1 0 TFs

Transcription factors with Perturb-seq knockdown data for BECN1. 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 = BECN1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

TF	Mean coef	Binding	Outlier	TF→Gene link

Rows:

Elements linked to BECN1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of BECN1, 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.

Element	Dist. to TSS	Link type	TFs
chr17:42,531,503–42,532,256	292.3 kb	Distal (>10kb) Multiome	571
chr17:42,535,863–42,536,855	287.9 kb	Distal (>10kb) Multiome	987
chr17:42,547,934–42,548,909	275.8 kb	Distal (>10kb) Multiome	325
chr17:42,554,285–42,555,164	269.5 kb	Distal (>10kb) Multiome	899
chr17:42,561,770–42,562,376	262.2 kb	Distal (>10kb) Multiome	905
chr17:42,566,552–42,567,732	257.2 kb	Distal (>10kb) Multiome	902
chr17:42,577,421–42,578,281	246.5 kb	Distal (>10kb) Multiome	884
chr17:42,578,382–42,578,892	245.6 kb	Distal (>10kb) Multiome	477
chr17:42,608,764–42,610,335	214.8 kb	Distal (>10kb) Multiome	909
chr17:42,658,938–42,659,852	165.0 kb	Distal (>10kb) Multiome	734
chr17:42,669,472–42,671,112	153.5 kb	Distal (>10kb) Multiome	230
chr17:42,673,584–42,674,462	150.3 kb	Distal (>10kb) Multiome	296
chr17:42,674,847–42,675,579	149.0 kb	Distal (>10kb) Multiome	194
chr17:42,676,055–42,678,790	147.1 kb	Distal (>10kb) Multiome	1070
chr17:42,679,005–42,680,519	144.4 kb	Distal (>10kb) Multiome	654
chr17:42,682,736–42,683,400	141.5 kb	Distal (>10kb) Multiome	480
chr17:42,744,352–42,745,375	79.3 kb	Distal (>10kb) Multiome	966
chr17:42,761,003–42,761,468	63.2 kb	Distal (>10kb) Multiome	335
chr17:42,780,029–42,780,899	43.7 kb	Distal (>10kb) Multiome	712
chr17:42,798,408–42,798,877	25.5 kb	Distal (>10kb) Multiome	866
chr17:42,823,968–42,824,503	42 bp	At TSS Multiome	829
chr17:42,832,889–42,833,841	9.1 kb	Proximal (<10kb) Multiome	980
chr17:42,964,237–42,964,843	140.2 kb	Distal (>10kb) Multiome	655
chr17:42,979,966–42,981,044	156.2 kb	Distal (>10kb) Multiome	843
chr17:42,997,598–42,998,917	174.0 kb	Distal (>10kb) Multiome	1112
chr17:43,021,026–43,022,568	198.1 kb	Distal (>10kb) Multiome	973
chr17:43,024,255–43,025,752	200.8 kb	Distal (>10kb) Multiome	811

Genome Browser

Genomic view of the BECN1 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.