SNRPD2

small nuclear ribonucleoprotein D2 polypeptide | Sm-D2, SNRPD1

The protein encoded by this gene belongs to the small nuclear ribonucleoprotein core protein family. It is required for pre-mRNA splicing and small nuclear ribonucleoprotein biogenesis. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2009]

Member of: DE-1 Developmental clusters: GC5

Biological processes 50 terms

7-methylguanosine cap hypermethylation (GO:0036261)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA splicing (GO:0008380)RNA splicing (GO:0008380)SMN-Sm protein complex (GO:0034719)U1 snRNP (GO:0005685)U1 snRNP (GO:0005685)U12-type spliceosomal complex (GO:0005689)U12-type spliceosomal complex (GO:0005689)U2 snRNP (GO:0005686)U2-type catalytic step 2 spliceosome (GO:0071007)U2-type precatalytic spliceosome (GO:0071005)U2-type prespliceosome assembly (GO:1903241)U2-type spliceosomal complex (GO:0005684)U4 snRNP (GO:0005687)U4/U6 x U5 tri-snRNP complex (GO:0046540)U4/U6 x U5 tri-snRNP complex (GO:0046540)U5 snRNP (GO:0005682)catalytic step 2 spliceosome (GO:0071013)catalytic step 2 spliceosome (GO:0071013)cytosol (GO:0005829)cytosol (GO:0005829)cytosol (GO:0005829)extracellular exosome (GO:0070062)mRNA splicing, via spliceosome (GO:0000398)mRNA splicing, via spliceosome (GO:0000398)mRNA splicing, via spliceosome (GO:0000398)mRNA splicing, via spliceosome (GO:0000398)methylosome (GO:0034709)negative regulation of mRNA splicing, via spliceosome (GO:0048025)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)pICln-Sm protein complex (GO:0034715)pICln-Sm protein complex (GO:0034715)precatalytic spliceosome (GO:0071011)protein binding (GO:0005515)small nuclear ribonucleoprotein complex (GO:0030532)small nuclear ribonucleoprotein complex (GO:0030532)spliceosomal complex (GO:0005681)spliceosomal complex assembly (GO:0000245)spliceosomal complex assembly (GO:0000245)spliceosomal snRNP assembly (GO:0000387)spliceosomal snRNP assembly (GO:0000387)spliceosomal snRNP assembly (GO:0000387)spliceosomal snRNP complex (GO:0097525)spliceosomal tri-snRNP complex assembly (GO:0000244)spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) (GO:0000388)

Expression (TPM)

TFs regulating SNRPD2 0 TFs

Transcription factors with Perturb-seq knockdown data for SNRPD2. 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 = SNRPD2 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 SNRPD2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SNRPD2, 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
chr19:45,402,280–45,402,828	289.4 kb	Distal (>10kb) Multiome	332
chr19:45,403,781–45,404,684	287.9 kb	Distal (>10kb) Multiome	494
chr19:45,404,818–45,406,887	285.5 kb	Distal (>10kb) Multiome	964
chr19:45,423,326–45,424,545	268.2 kb	Distal (>10kb) Multiome	996
chr19:45,439,539–45,440,189	252.1 kb	Distal (>10kb) Multiome	718
chr19:45,443,052–45,444,768	248.5 kb	Distal (>10kb) Multiome	857
chr19:45,450,695–45,451,265	241.1 kb	Distal (>10kb) Multiome	515
chr19:45,455,706–45,456,201	236.0 kb	Distal (>10kb) Multiome	776
chr19:45,467,169–45,468,696	224.2 kb	Distal (>10kb) Multiome	686
chr19:45,468,843–45,470,312	222.5 kb	Distal (>10kb) Multiome	769
chr19:45,478,416–45,479,276	213.2 kb	Distal (>10kb) Multiome	809
chr19:45,485,144–45,486,070	206.4 kb	Distal (>10kb) Multiome	659
chr19:45,492,647–45,493,344	199.1 kb	Distal (>10kb) Multiome	522
chr19:45,496,247–45,497,677	194.9 kb	Distal (>10kb) Multiome	742
chr19:45,498,270–45,499,916	192.4 kb	Distal (>10kb) Multiome	464
chr19:45,506,243–45,507,963	185.2 kb	Distal (>10kb) Multiome	969
chr19:45,508,291–45,509,751	183.3 kb	Distal (>10kb) Multiome	670
chr19:45,528,315–45,529,353	163.1 kb	Distal (>10kb) Multiome	425
chr19:45,584,026–45,585,251	107.3 kb	Distal (>10kb) Multiome	907
chr19:45,607,096–45,607,695	84.5 kb	Distal (>10kb) Multiome	526
chr19:45,615,654–45,616,944	75.8 kb	Distal (>10kb) Multiome	480
chr19:45,632,406–45,633,148	59.2 kb	Distal (>10kb) Multiome	358
chr19:45,638,965–45,639,696	52.6 kb	Distal (>10kb) Multiome	477
chr19:45,640,813–45,642,557	49.7 kb	Distal (>10kb) Multiome	865
chr19:45,643,187–45,644,012	48.4 kb	Distal (>10kb) Multiome	542
chr19:45,645,389–45,646,343	46.0 kb	Distal (>10kb) Multiome	566
chr19:45,667,856–45,668,417	23.9 kb	Distal (>10kb) Multiome	386
chr19:45,668,914–45,669,719	22.6 kb	Distal (>10kb) Multiome	611
chr19:45,670,481–45,671,446	20.9 kb	Distal (>10kb) Multiome	361
chr19:45,676,875–45,678,209	14.4 kb	Distal (>10kb) Multiome	418
chr19:45,681,530–45,682,004	10.3 kb	Distal (>10kb) Multiome	648
chr19:45,691,622–45,693,062	429 bp	At TSS Multiome	943
chr19:45,693,387–45,693,768	1.4 kb	Proximal (<10kb)	354
chr19:45,716,851–45,718,343	25.6 kb	Distal (>10kb) Multiome	895
chr19:45,730,200–45,731,219	39.0 kb	Distal (>10kb) Multiome	740
chr19:45,767,223–45,771,892	77.5 kb	Distal (>10kb) Multiome	1161
chr19:45,779,258–45,780,150	87.7 kb	Distal (>10kb) Multiome	445
chr19:45,792,338–45,793,273	100.9 kb	Distal (>10kb) Multiome	609
chr19:45,815,484–45,818,073	123.9 kb	Distal (>10kb) Multiome	623
chr19:45,862,559–45,864,765	172.5 kb	Distal (>10kb) Multiome	976
chr19:45,881,480–45,883,645	190.2 kb	Distal (>10kb) Multiome	990
chr19:45,885,092–45,887,294	194.8 kb	Distal (>10kb) Multiome	913
chr19:45,901,212–45,903,471	210.9 kb	Distal (>10kb) Multiome	780
chr19:45,952,967–45,953,485	261.1 kb	Distal (>10kb) Multiome	329
chr19:45,973,761–45,974,227	282.1 kb	Distal (>10kb) Multiome	201

Genome Browser

Genomic view of the SNRPD2 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.