RTN2

reticulon 2 | NSP2, NSPL1, SPG12

This gene belongs to the family of reticulon encoding genes. Reticulons are associated with the endoplasmic reticulum, and are involved in neuroendocrine secretion or in membrane trafficking in neuroendocrine cells. Reticulon proteins also play an important role in the replication of positive-strand RNA (ssRNA) viruses. Mutations at this locus have been associated with autosomal dominant spastic paraplegia-12. [provided by RefSeq, Aug 2020]

Biological processes 27 terms

T-tubule (GO:0030315)T-tubule (GO:0030315)Z disc (GO:0030018)Z disc (GO:0030018)brain development (GO:0007420)cell surface (GO:0009986)cytoskeleton (GO:0005856)endoplasmic reticulum (GO:0005783)endoplasmic reticulum (GO:0005783)endoplasmic reticulum membrane (GO:0005789)endoplasmic reticulum membrane (GO:0005789)endoplasmic reticulum membrane (GO:0005789)endoplasmic reticulum tubular network formation (GO:0071787)endoplasmic reticulum tubular network membrane organization (GO:1990809)intermediate filament (GO:0005882)intracellular protein transmembrane transport (GO:0065002)negative regulation of amyloid-beta formation (GO:1902430)negative regulation of amyloid-beta formation (GO:1902430)neuron differentiation (GO:0030182)neuron projection (GO:0043005)plasma membrane (GO:0005886)postsynaptic density (GO:0014069)protein binding (GO:0005515)regulation of D-glucose import across plasma membrane (GO:0046324)sarcolemma (GO:0042383)sarcoplasmic reticulum membrane (GO:0033017)terminal cisterna (GO:0014802)

Expression (TPM)

TFs regulating RTN2 0 TFs

Transcription factors with Perturb-seq knockdown data for RTN2. 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 = RTN2 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 RTN2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RTN2, 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
chr19:45,234,200–45,234,822	258.7 kb	Distal (>10kb) Multiome	105
chr19:45,250,821–45,251,491	242.0 kb	Distal (>10kb) Multiome	397
chr19:45,340,431–45,341,201	152.4 kb	Distal (>10kb) Multiome	363
chr19:45,370,064–45,371,122	122.6 kb	Distal (>10kb) Multiome	592
chr19:45,402,280–45,402,828	90.7 kb	Distal (>10kb) Multiome	332
chr19:45,403,781–45,404,684	89.2 kb	Distal (>10kb) Multiome	494
chr19:45,404,818–45,406,887	86.7 kb	Distal (>10kb) Multiome	964
chr19:45,423,326–45,424,545	69.5 kb	Distal (>10kb) Multiome	996
chr19:45,439,539–45,440,189	53.4 kb	Distal (>10kb) Multiome	718
chr19:45,443,052–45,444,768	49.7 kb	Distal (>10kb) Multiome	857
chr19:45,450,695–45,451,265	42.3 kb	Distal (>10kb) Multiome	515
chr19:45,455,706–45,456,201	37.3 kb	Distal (>10kb) Multiome	776
chr19:45,467,169–45,468,696	25.5 kb	Distal (>10kb) Multiome	686
chr19:45,468,843–45,470,312	23.8 kb	Distal (>10kb) Multiome	769
chr19:45,478,416–45,479,276	14.4 kb	Distal (>10kb) Multiome	809
chr19:45,485,144–45,486,070	7.7 kb	Proximal (<10kb) Multiome	659
chr19:45,492,647–45,493,344	333 bp	At TSS Multiome	522
chr19:45,496,247–45,497,677	3.8 kb	Proximal (<10kb) Multiome	742
chr19:45,497,784–45,498,132	4.6 kb	Proximal (<10kb)	18
chr19:45,498,270–45,499,916	6.3 kb	Proximal (<10kb) Multiome	464
chr19:45,506,243–45,507,963	13.5 kb	Distal (>10kb) Multiome	969
chr19:45,508,291–45,509,751	15.4 kb	Distal (>10kb) Multiome	670
chr19:45,528,315–45,529,353	35.6 kb	Distal (>10kb) Multiome	425
chr19:45,584,026–45,585,251	91.4 kb	Distal (>10kb) Multiome	907
chr19:45,607,096–45,607,695	114.2 kb	Distal (>10kb) Multiome	526
chr19:45,615,654–45,616,944	122.9 kb	Distal (>10kb) Multiome	480
chr19:45,632,406–45,633,148	139.5 kb	Distal (>10kb) Multiome	358
chr19:45,638,965–45,639,696	146.1 kb	Distal (>10kb) Multiome	477
chr19:45,640,813–45,642,557	149.1 kb	Distal (>10kb) Multiome	865
chr19:45,643,187–45,644,012	150.4 kb	Distal (>10kb) Multiome	542
chr19:45,645,389–45,646,343	152.7 kb	Distal (>10kb) Multiome	566
chr19:45,667,856–45,668,417	174.8 kb	Distal (>10kb) Multiome	386
chr19:45,668,914–45,669,719	176.1 kb	Distal (>10kb) Multiome	611
chr19:45,670,481–45,671,446	177.8 kb	Distal (>10kb) Multiome	361
chr19:45,676,875–45,678,209	184.3 kb	Distal (>10kb) Multiome	418
chr19:45,681,530–45,682,004	188.5 kb	Distal (>10kb) Multiome	648
chr19:45,691,622–45,693,062	199.2 kb	Distal (>10kb) Multiome	943
chr19:45,716,851–45,718,343	224.3 kb	Distal (>10kb) Multiome	895
chr19:45,730,200–45,731,219	237.8 kb	Distal (>10kb) Multiome	740
chr19:45,767,223–45,771,892	276.2 kb	Distal (>10kb) Multiome	1161
chr19:45,779,258–45,780,150	286.4 kb	Distal (>10kb) Multiome	445
chr19:45,792,338–45,793,273	299.7 kb	Distal (>10kb) Multiome	609

Genome Browser

Genomic view of the RTN2 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.