NPAS1

neuronal PAS domain protein 1 | MOP5, PASD5, bHLHe11

The protein encoded by this gene is a member of the basic helix-loop-helix (bHLH)-PAS family of transcription factors. Studies of a related mouse gene suggest that it functions in neurons. The exact function of this gene is unclear, but it may play protective or modulatory roles during late embryogenesis and postnatal development. [provided by RefSeq, Jul 2008]

Biological processes 15 terms

DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977)central nervous system development (GO:0007417)chromatin (GO:0000785)negative regulation of DNA-templated transcription (GO:0045892)negative regulation of DNA-templated transcription (GO:0045892)nucleus (GO:0005634)nucleus (GO:0005634)protein dimerization activity (GO:0046983)protein heterodimerization activity (GO:0046982)protein heterodimerization activity (GO:0046982)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)

Expression (TPM)

TFs regulating NPAS1 0 TFs

Transcription factors with Perturb-seq knockdown data for NPAS1. 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 = NPAS1 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 NPAS1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of NPAS1, 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
chr19:46,745,601–46,746,962	288.9 kb	Distal (>10kb) Multiome	561
chr19:46,787,215–46,789,013	246.7 kb	Distal (>10kb) Multiome	944
chr19:46,850,211–46,851,336	184.5 kb	Distal (>10kb) Multiome	946
chr19:46,855,920–46,856,711	179.1 kb	Distal (>10kb) Multiome	610
chr19:46,859,815–46,861,611	175.0 kb	Distal (>10kb) Multiome	1061
chr19:47,019,502–47,020,076	15.6 kb	Distal (>10kb) Multiome	188
chr19:47,032,094–47,032,488	2.8 kb	Proximal (<10kb)	205
chr19:47,035,231–47,035,394	at TSS	At TSS	205
chr19:47,035,599–47,036,293	663 bp	At TSS Multiome	627
chr19:47,047,837–47,048,980	12.6 kb	Distal (>10kb) Multiome	760
chr19:47,058,561–47,059,308	23.6 kb	Distal (>10kb) Multiome	357
chr19:47,111,821–47,113,936	76.8 kb	Distal (>10kb) Multiome	1117
chr19:47,130,439–47,131,651	95.5 kb	Distal (>10kb) Multiome	908
chr19:47,157,325–47,158,494	122.2 kb	Distal (>10kb) Multiome	271
chr19:47,196,586–47,197,452	161.5 kb	Distal (>10kb) Multiome	94
chr19:47,225,386–47,231,990	192.5 kb	Distal (>10kb) Multiome	1389
chr19:47,240,827–47,241,572	205.9 kb	Distal (>10kb) Multiome HiCAR	616
chr19:47,242,713–47,243,645	207.8 kb	Distal (>10kb) Multiome HiCAR	568
chr19:47,243,835–47,244,896	209.0 kb	Distal (>10kb) Multiome HiCAR	1001
chr19:47,256,041–47,258,057	221.8 kb	Distal (>10kb) Multiome	907
chr19:47,272,778–47,275,890	238.1 kb	Distal (>10kb) Multiome	931

Genome Browser

Genomic view of the NPAS1 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.