SNRPB2

Summary

SNRPB2 (small nuclear ribonucleoprotein polypeptide B2, HGNC:11155) is a protein-coding gene on chromosome 20p12.1, encoding U2 small nuclear ribonucleoprotein B’’ (P08579). Involved in pre-mRNA splicing as component of the spliceosome. It is a selective cancer dependency (DepMap: 66.4% of cell lines).

The protein encoded by this gene associates with stem loop IV of U2 small nuclear ribonucleoprotein (U2 snRNP) in the presence of snRNP-A’. The encoded protein may play a role in pre-mRNA splicing. Autoantibodies from patients with systemic lupus erythematosus frequently recognize epitopes on the encoded protein. Two transcript variants encoding the same protein have been found for this gene.

Source: NCBI Gene 6629 — RefSeq curated summary.

At a glance

• GWAS associations: 5
• Clinical variants (ClinVar): 72 total
• Druggable target: yes — 1 molecules with ChEMBL bioactivity
• Cancer dependency (DepMap): dependent in 66.4% of screened cell lines
• MANE Select transcript: NM_003092

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:11155
Approved symbol	SNRPB2
Name	small nuclear ribonucleoprotein polypeptide B2
Location	20p12.1
Locus type	gene with protein product
Status	Approved
Aliases	Msl1, U2B''
Ensembl gene	ENSG00000125870
Ensembl biotype	protein_coding
OMIM	603520
Entrez	6629

Gene structure

Transcript identifiers

Ensembl transcripts: 20 — 19 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000246071, ENST00000377943, ENST00000478522, ENST00000872497, ENST00000872498, ENST00000872499, ENST00000872500, ENST00000872501, ENST00000872502, ENST00000911315, ENST00000911316, ENST00000911317, ENST00000911318, ENST00000911319, ENST00000911320, ENST00000911321, ENST00000911322, ENST00000911323, ENST00000911324, ENST00000911325

RefSeq mRNA: 2 — MANE Select: NM_003092 NM_003092, NM_198220

CCDS: CCDS13123

Canonical transcript exons

ENST00000246071 — 7 exons

Exon	Start	End
ENSE00000859180	16732164	16732336
ENSE00000859181	16737261	16737401
ENSE00000859183	16738852	16738902
ENSE00000859186	16740325	16740413
ENSE00001940206	16730026	16730164
ENSE00003657914	16731668	16731766
ENSE00003718067	16740846	16742564

Expression profiles

Bgee: expression breadth ubiquitous, 295 present calls, max score 98.68.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 112.7535 / max 1011.7585, expressed in 1821 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
183631	112.5344	1821
183632	0.2191	77

Top tissues by expression

295 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
oocyte	CL:0000023	98.68	gold quality
secondary oocyte	CL:0000655	97.84	gold quality
ganglionic eminence	UBERON:0004023	97.52	gold quality
embryo	UBERON:0000922	97.12	gold quality
calcaneal tendon	UBERON:0003701	97.09	gold quality
monocyte	CL:0000576	96.67	gold quality
mononuclear cell	CL:0000842	96.67	gold quality
cortical plate	UBERON:0005343	96.64	gold quality
leukocyte	CL:0000738	96.56	gold quality
epithelium of nasopharynx	UBERON:0001951	96.46	gold quality
endometrium epithelium	UBERON:0004811	96.45	gold quality
skin of hip	UBERON:0001554	96.07	gold quality
vermiform appendix	UBERON:0001154	95.61	gold quality
islet of Langerhans	UBERON:0000006	95.57	gold quality
superficial temporal artery	UBERON:0001614	95.42	gold quality
caecum	UBERON:0001153	95.36	gold quality
adult organism	UBERON:0007023	95.33	gold quality
mammary duct	UBERON:0001765	95.29	gold quality
lower lobe of lung	UBERON:0008949	95.04	gold quality
lymph node	UBERON:0000029	95.03	gold quality
mucosa of paranasal sinus	UBERON:0005030	95.03	gold quality
ventricular zone	UBERON:0003053	94.86	gold quality
endometrium	UBERON:0001295	94.83	gold quality
blood vessel layer	UBERON:0004797	94.61	gold quality
bone marrow	UBERON:0002371	94.57	gold quality
epithelium of mammary gland	UBERON:0003244	94.49	gold quality
corpus epididymis	UBERON:0004359	94.44	gold quality
oral cavity	UBERON:0000167	94.25	gold quality
amniotic fluid	UBERON:0000173	94.23	gold quality
seminal vesicle	UBERON:0000998	94.23	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	9.83
E-MTAB-6524	no	462.02

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): MYC

miRNA regulators (miRDB)

77 targeting SNRPB2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-200B-3P	100.00	73.31	2693
HSA-MIR-200C-3P	100.00	73.35	2685
HSA-MIR-429	100.00	73.44	2698
HSA-MIR-3613-3P	100.00	76.36	7965
HSA-MIR-5193	100.00	67.26	1744
HSA-MIR-5692A	100.00	74.40	6850
HSA-MIR-1252-5P	100.00	69.80	2774
HSA-MIR-548N	99.98	71.94	4170
HSA-MIR-4789-5P	99.98	70.76	2721
HSA-MIR-568	99.98	69.86	2084
HSA-MIR-493-5P	99.96	72.47	2382
HSA-MIR-5688	99.96	73.23	4504
HSA-MIR-495-3P	99.96	72.81	4197
HSA-MIR-1250-3P	99.96	70.04	4038
HSA-MIR-590-3P	99.96	74.34	6478
HSA-LET-7C-3P	99.95	73.42	2862
HSA-MIR-545-3P	99.95	70.74	2783
HSA-MIR-141-3P	99.94	72.79	2421
HSA-MIR-200A-3P	99.94	72.68	2420
HSA-MIR-497-5P	99.92	71.83	2674
HSA-MIR-15A-5P	99.90	72.80	2787
HSA-MIR-16-5P	99.90	72.80	2780
HSA-MIR-195-5P	99.90	72.81	2805
HSA-MIR-15B-5P	99.90	72.78	2798
HSA-MIR-424-5P	99.89	71.90	2641
HSA-MIR-6838-5P	99.89	71.94	2690
HSA-MIR-95-5P	99.89	72.17	3973
HSA-LET-7A-2-3P	99.87	70.53	1921
HSA-MIR-579-3P	99.86	71.66	3628
HSA-LET-7G-3P	99.85	70.43	1929

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 66.4% of screened cell lines.

Literature-anchored findings (GeneRIF, showing 1)

• Data suggest that protein-protein interactions localize U2A’ (SNRPA1) to the U2 snRNP (U2 small nuclear ribonucleoprotein) and exclude it from the U1 snRNP, rather than to enhance U2 snRNA (U2 small nuclear RNA; RNU2-1) binding of U2B’’ (SNRPB2). (PMID:24866816)

Cross-species orthologs

6 orthologs

Organism	Symbol	Gene ID
danio_rerio	snrpb2	ENSDARG00000039424
mus_musculus	Snrpb2	ENSMUSG00000008333
rattus_norvegicus	Snrpb2	ENSRNOG00000004967
drosophila_melanogaster	snf	FBGN0003449
caenorhabditis_elegans		WBGENE00004385
caenorhabditis_elegans		WBGENE00004386

Paralogs (1): SNRPA (ENSG00000077312)

Protein

Protein identifiers

U2 small nuclear ribonucleoprotein B’’ — P08579 (reviewed: P08579)

All UniProt accessions (1): P08579

UniProt curated annotations — full annotation on UniProt →

Function. Involved in pre-mRNA splicing as component of the spliceosome. Associated with sn-RNP U2, where it contributes to the binding of stem loop IV of U2 snRNA.

Subunit / interactions. Identified in the spliceosome B complex. Identified in the spliceosome C complex. Present in a spliceosome complex assembled in vitro, and composed of SNRPB2, HPRP8BP and CRNKL1. Contributes to the binding of stem loop IV of U2 snRNA with SNRPP1.

Subcellular location. Nucleus.

Miscellaneous. Patients with systemic lupus erythematosus produce antibodies which interact with snRNP proteins.

Similarity. Belongs to the RRM U1 A/B’’ family.

RefSeq proteins (2): NP_003083, NP_937863 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000504	RRM_dom	Domain
IPR012677	Nucleotide-bd_a/b_plait_sf	Homologous_superfamily
IPR034562	U2B’’_RRM2	Domain
IPR034564	U2B’’_RRM1	Domain
IPR035979	RBD_domain_sf	Homologous_superfamily

Pfam: PF00076

UniProt features (26 total): strand 9, helix 5, domain 2, turn 2, compositionally biased region 2, modified residue 2, chain 1, region of interest 1, cross-link 1, sequence variant 1

Structure

Experimental structures (PDB)

50 structures, top 30 by resolution.

PDB	Method	Resolution (Å)
1A9N	X-RAY DIFFRACTION	2.38
7EVO	ELECTRON MICROSCOPY	2.5
8H6L	ELECTRON MICROSCOPY	2.6
8H6K	ELECTRON MICROSCOPY	2.7
8HK1	ELECTRON MICROSCOPY	2.7
8C6J	ELECTRON MICROSCOPY	2.8
6ID1	ELECTRON MICROSCOPY	2.86
6ID0	ELECTRON MICROSCOPY	2.9
6ICZ	ELECTRON MICROSCOPY	3
7VPX	ELECTRON MICROSCOPY	3
8I0R	ELECTRON MICROSCOPY	3
8I0T	ELECTRON MICROSCOPY	3
8I0V	ELECTRON MICROSCOPY	3
8H6E	ELECTRON MICROSCOPY	3.2
8H6J	ELECTRON MICROSCOPY	3.25
6QX9	ELECTRON MICROSCOPY	3.28
6QDV	ELECTRON MICROSCOPY	3.3
8I0U	ELECTRON MICROSCOPY	3.3
9FMD	ELECTRON MICROSCOPY	3.3
8I0P	ELECTRON MICROSCOPY	3.4
8I0W	ELECTRON MICROSCOPY	3.4
5XJC	ELECTRON MICROSCOPY	3.6
7W59	ELECTRON MICROSCOPY	3.6
7W5A	ELECTRON MICROSCOPY	3.6
6AHD	ELECTRON MICROSCOPY	3.8
5YZG	ELECTRON MICROSCOPY	4.1
8QZS	ELECTRON MICROSCOPY	4.1
8I0S	ELECTRON MICROSCOPY	4.2
7W5B	ELECTRON MICROSCOPY	4.3
8R09	ELECTRON MICROSCOPY	4.3

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P08579-F1	83.46	0.62

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (3): 111, 151, 111

Function

Pathways and Gene Ontology

Reactome pathways

7 pathways

ID	Pathway
R-HSA-72163	mRNA Splicing - Major Pathway
R-HSA-9770562	mRNA Polyadenylation
R-HSA-9918481	Dengue Virus-Host Interactions
R-HSA-9943411	CHD1 and CHD2 subfamily
R-HSA-72172	mRNA Splicing
R-HSA-72203	Processing of Capped Intron-Containing Pre-mRNA
R-HSA-8953854	Metabolism of RNA

MSigDB gene sets: 386 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_BRAIN_TUMORAL_MACROPHAGE_UP, GSE18804_SPLEEN_MACROPHAGE_VS_TUMORAL_MACROPHAGE_UP, MODULE_52, GCM_GSPT1, MODULE_151, MORF_UBE2I, MODULE_16, PUJANA_CHEK2_PCC_NETWORK, OUELLET_OVARIAN_CANCER_INVASIVE_VS_LMP_UP, MODULE_388, ONKEN_UVEAL_MELANOMA_UP, ROZANOV_MMP14_TARGETS_UP, REACTOME_MRNA_3_END_PROCESSING, REACTOME_PROCESSING_OF_CAPPED_INTRON_CONTAINING_PRE_MRNA, BYSTRYKH_HEMATOPOIESIS_STEM_CELL_AND_BRAIN_QTL_CIS

GO Biological Process (4): mRNA splicing, via spliceosome (GO:0000398), U2-type prespliceosome assembly (GO:1903241), mRNA processing (GO:0006397), RNA splicing (GO:0008380)

GO Molecular Function (4): U1 snRNA binding (GO:0030619), nucleic acid binding (GO:0003676), RNA binding (GO:0003723), protein binding (GO:0005515)

GO Cellular Component (14): fibrillar center (GO:0001650), nucleus (GO:0005634), nucleoplasm (GO:0005654), spliceosomal complex (GO:0005681), U2-type spliceosomal complex (GO:0005684), U1 snRNP (GO:0005685), U2 snRNP (GO:0005686), nuclear speck (GO:0016607), cytoplasmic ribonucleoprotein granule (GO:0036464), U2-type precatalytic spliceosome (GO:0071005), U2-type catalytic step 2 spliceosome (GO:0071007), catalytic step 2 spliceosome (GO:0071013), spliceosomal snRNP complex (GO:0097525), ribonucleoprotein complex (GO:1990904)

Reactome top-level categories

Rollup of top-6 pathways:

Category	Pathways
mRNA Splicing	1
mRNA 3’-end processing	1
Dengue Virus Infection	1
CHD chromatin remodelers	1
Processing of Capped Intron-Containing Pre-mRNA	1
Metabolism of RNA	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
RNA processing	2
binding	2
cellular anatomical structure	2
spliceosomal complex	2
spliceosomal snRNP complex	2
U2-type spliceosomal complex	2
U2 snRNP	2
RNA splicing, via transesterification reactions with bulged adenosine as nucleophile	1
mRNA processing	1
spliceosomal complex assembly	1
mRNA metabolic process	1
snRNA binding	1
nucleic acid binding	1
nucleolus	1
intracellular membrane-bounded organelle	1
nuclear lumen	1
nuclear protein-containing complex	1
ribonucleoprotein complex	1
nuclear ribonucleoprotein granule	1
cytoplasm	1
ribonucleoprotein granule	1
U1 snRNP	1
U4/U6 x U5 tri-snRNP complex	1
precatalytic spliceosome	1
U6 snRNP	1
catalytic step 2 spliceosome	1
Prp19 complex	1
U5 snRNP	1
catalytic complex	1
small nuclear ribonucleoprotein complex	1
protein-containing complex	1

Protein interactions and networks

STRING

2807 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
SNRPB2	SNRPA1	P09661	997
SNRPB2	SNRPB	P14678	856
SNRPB2	WBP4	O75554	855
SNRPB2	SNRPC	P09234	789
SNRPB2	SNRNP70	P08621	769
SNRPB2	SNRPG	P62308	702
SNRPB2	U2AF1	Q01081	670
SNRPB2	SNRPD2	P43330	658
SNRPB2	SRSF2	Q01130	577
SNRPB2	CGB5	P01233	568
SNRPB2	SNRPN	P14648	567
SNRPB2	SRSF1	Q07955	540
SNRPB2	LACTBL1	A8MY62	531
SNRPB2	SNRPF	P62306	514
SNRPB2	APOL2	Q9BQE5	512

IntAct

212 interactions, top by confidence:

A	B	Type	Score
IFIT1	IFIT3	psi-mi:“MI:0914”(association)	0.920
SNRPB2	SNRPA1	psi-mi:“MI:0915”(physical association)	0.910
CSNK1A1	FAM83G	psi-mi:“MI:0914”(association)	0.900
IFIT2	IFIT3	psi-mi:“MI:0914”(association)	0.780
SNRPE	GEMIN2	psi-mi:“MI:0914”(association)	0.770
EZH2	EPOP	psi-mi:“MI:0914”(association)	0.730
PHF5A	SF3B1	psi-mi:“MI:0914”(association)	0.730
ZBTB14	SNRPB2	psi-mi:“MI:0915”(physical association)	0.720
TRIM27	SNRPB2	psi-mi:“MI:0915”(physical association)	0.720
SNRPB2	ZBTB14	psi-mi:“MI:0915”(physical association)	0.720
SNRPB2	TRIM27	psi-mi:“MI:0915”(physical association)	0.720
SNRPD2	GEMIN2	psi-mi:“MI:0914”(association)	0.710
SNRPG	GEMIN2	psi-mi:“MI:0914”(association)	0.710
SNRPB2	PNMA1	psi-mi:“MI:0915”(physical association)	0.700
PNMA1	SNRPB2	psi-mi:“MI:0915”(physical association)	0.700
SNRPB	PRMT5	psi-mi:“MI:0914”(association)	0.670
SNRPA1	HTATSF1	psi-mi:“MI:0914”(association)	0.640
NCBP1	KPNA3	psi-mi:“MI:0914”(association)	0.640
SF3B1	SAP18	psi-mi:“MI:0914”(association)	0.640
SNRNP70	GEMIN2	psi-mi:“MI:0914”(association)	0.640
SNRPA1	U2SURP	psi-mi:“MI:0914”(association)	0.640
PPP4R2	SF3B1	psi-mi:“MI:0914”(association)	0.570

BioGRID (412): SNRPB2 (Two-hybrid), SNRPB2 (Two-hybrid), SNRPB2 (Two-hybrid), SNRPB2 (Two-hybrid), ZBTB14 (Two-hybrid), PNMA1 (Two-hybrid), MTUS2 (Two-hybrid), HOMEZ (Two-hybrid), HMBOX1 (Two-hybrid), SNRPB2 (Affinity Capture-MS), SNRPB2 (Affinity Capture-MS), SNRPB2 (Affinity Capture-MS), SNRPB2 (Affinity Capture-MS), SF3A3 (Co-fractionation), SF3B1 (Co-fractionation)

ESM2 similar proteins: A2Y0J7, B5DF91, B8AM21, O22922, O95758, P08579, P09012, P17225, P26599, P43332, P45429, P70372, Q00438, Q06AA4, Q08E07, Q0DKM4, Q0J9Y2, Q10MR0, Q12926, Q14576, Q15717, Q28FX0, Q29099, Q2KIR1, Q39244, Q54J05, Q5SZQ8, Q5U259, Q60900, Q62189, Q66H20, Q6GLB5, Q7ZWM3, Q8BHD7, Q8CH84, Q8CIN6, Q8H1S6, Q8WN55, Q8WVV9, Q91579

Diamond homologs: A2Y0J7, A5A6M3, A6NDE4, A6NEQ0, B8AM21, O22922, O74968, O75494, P08579, P09012, P0C7P1, P0DJD3, P0DJD4, P38159, P40567, P43332, P45429, P59708, Q06AA4, Q0DKM4, Q10MR0, Q15415, Q2KIR1, Q39244, Q4R7F0, Q4V898, Q54J05, Q62189, Q6IRQ4, Q7LL14, Q7ZWA3, Q8H1S6, Q8ITY4, Q8WXF0, Q91VM5, Q9CQI7, Q9FMP4, Q9R0U0, Q9WV02, Q9Y3B4

SIGNOR signaling

1 interactions.

A	Effect	B	Mechanism
SNRPB2	“form complex”	“U2 snRNP complex”	binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 157 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

Pathway	Partners	Fold	FDR
Metabolism of non-coding RNA	9	48.0×	3e-12
mRNA Splicing	30	27.7×	7e-34
mRNA Splicing - Minor Pathway	13	24.5×	2e-13
mRNA Polyadenylation	32	23.6×	7e-34
Processing of Capped Intron-Containing Pre-mRNA	34	23.5×	9e-36
SARS-CoV-2 modulates host translation machinery	10	18.8×	5e-09
RNA Polymerase II Transcription Termination	10	18.5×	6e-09
CHD1 and CHD2 subfamily	20	18.3×	3e-18

GO biological processes:

GO term	Partners	Fold	FDR
U2-type prespliceosome assembly	17	75.2×	6e-27
spliceosomal snRNP assembly	10	41.2×	5e-12
spliceosomal complex assembly	9	38.4×	2e-10
RNA splicing, via transesterification reactions	6	26.6×	8e-06
mRNA splicing, via spliceosome	34	22.1×	1e-33
RNA splicing	22	13.8×	1e-16
intrinsic apoptotic signaling pathway	5	12.7×	4e-03
regulation of RNA splicing	6	9.3×	4e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

72 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	48
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

2074 predictions. Top by Δscore:

Variant	Effect	Δscore
17:40123379:CGGTA:C	donor_loss	1.0000
17:40123380:GGT:G	donor_loss	1.0000
17:40123381:G:GG	donor_gain	1.0000
17:40123381:GTACG:G	donor_loss	1.0000
17:40123382:T:A	donor_loss	1.0000
17:40126178:TTTA:T	acceptor_loss	1.0000
17:40126179:TTA:T	acceptor_loss	1.0000
17:40126180:TAGCT:T	acceptor_loss	1.0000
17:40126181:A:AG	acceptor_gain	1.0000
17:40126181:A:T	acceptor_loss	1.0000
17:40126182:G:GT	acceptor_gain	1.0000
17:40126182:GC:G	acceptor_gain	1.0000
17:40126182:GCT:G	acceptor_gain	1.0000
17:40126182:GCTC:G	acceptor_gain	1.0000
17:40126182:GCTCC:G	acceptor_gain	1.0000
17:40126396:GGACA:G	donor_gain	1.0000
17:40126404:AAG:A	donor_loss	1.0000
17:40126405:AGGTG:A	donor_loss	1.0000
17:40126406:GGTG:G	donor_loss	1.0000
17:40126407:G:C	donor_loss	1.0000
17:40129624:GCAA:G	donor_gain	1.0000
17:40129628:G:GG	donor_gain	1.0000
17:40131580:GGCTG:G	donor_gain	1.0000
17:40131581:GCTG:G	donor_gain	1.0000
17:40131581:GCTGG:G	donor_gain	1.0000
17:40131582:CTGGT:C	donor_loss	1.0000
17:40131583:TGGT:T	donor_loss	1.0000
17:40131585:G:C	donor_loss	1.0000
17:40131585:G:GG	donor_gain	1.0000
17:40131586:T:A	donor_loss	1.0000

AlphaMissense

1496 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
20:16732175:T:C	S26P	1.000
20:16732179:T:C	L27P	1.000
20:16732199:T:C	F34L	1.000
20:16732201:T:A	F34L	1.000
20:16732201:T:G	F34L	1.000
20:16732202:G:C	G35R	1.000
20:16732203:G:A	G35D	1.000
20:16732203:G:T	G35V	1.000
20:16732245:G:C	R49T	1.000
20:16732245:G:T	R49M	1.000
20:16732246:G:C	R49S	1.000
20:16732246:G:T	R49S	1.000
20:16732247:G:A	G50R	1.000
20:16732247:G:C	G50R	1.000
20:16732247:G:T	G50W	1.000
20:16732248:G:A	G50E	1.000
20:16732248:G:T	G50V	1.000
20:16732251:A:C	Q51P	1.000
20:16732252:G:C	Q51H	1.000
20:16732252:G:T	Q51H	1.000
20:16732253:G:C	A52P	1.000
20:16732254:C:A	A52D	1.000
20:16732256:T:A	F53I	1.000
20:16732256:T:C	F53L	1.000
20:16732258:T:A	F53L	1.000
20:16732258:T:G	F53L	1.000
20:16732260:T:A	V54D	1.000
20:16732263:T:A	I55K	1.000
20:16732266:T:C	F56S	1.000
20:16732292:G:C	A65P	1.000

dbSNP variants (sampled 300 via entrez): RS1000089991 (20:16742696 G>A,C), RS1000797936 (20:16730205 A>G), RS1001030440 (20:16734640 T>A,C), RS1001073869 (20:16741380 A>G), RS1001092297 (20:16733854 G>A), RS1001181537 (20:16736052 A>G), RS1001409687 (20:16729915 C>A,T), RS1001713350 (20:16742709 TC>T), RS1002184152 (20:16734711 G>A,C), RS1002298113 (20:16730535 C>G,T), RS1002359039 (20:16728712 C>T), RS1002717887 (20:16741872 C>G,T), RS1002816696 (20:16728369 A>G,T), RS1002855520 (20:16737497 T>C), RS1002892763 (20:16739722 CCTTT>C)

Disease associations

OMIM: gene MIM:603520 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

5 associations (top):

Study	Trait	p-value
GCST005724_3	Food allergy (maternal genetic effects)	7.000000e-06
GCST006298_6	Response to haloperidol in schizophrenia	9.000000e-06
GCST008916_21	Asthma	2.000000e-62
GCST008916_85	Asthma	2.000000e-12
GCST009391_546	Metabolite levels	2.000000e-06

EFO canonical traits (3, from GWAS)

EFO ID	Trait name
EFO:0005939	parental genotype effect measurement
EFO:0007016	food allergy measurement
EFO:0010496	hippuric acid measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5725125 (SINGLE PROTEIN)

Molecules with ChEMBL bioactivity

1 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 1,538 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

Molecule	Name	Phase	Patents
CHEMBL1232461	MOLIBRESIB	2	1,538

PharmGKB: 1 entry (VIP=true, CPIC=false)

ChEMBL bioactivities

3 potent at pChembl≥5 of 3 total, top 3 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChembl	Type	Value	Unit	Molecule
7.02	Kd	94.7	nM	CHEMBL5653589
7.02	ED50	94.7	nM	CHEMBL5653589
5.23	IC50	5870	nM	MOLIBRESIB

PubChem BioAssay actives

2 with measured affinity, of 8 total; 2 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

Compound	Assay	Type	Value	Unit
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide	2149456: Binding affinity to human SNRPB2 incubated for 45 mins by Kinobead based pull down assay	kd	0.0947	uM
2-[(4S)-6-(4-chlorophenyl)-8-methoxy-1-methyl-4H-[1,2,4]triazolo[4,3-a][1,4]benzodiazepin-4-yl]-N-ethylacetamide	2178631: Inhibition of SNRPB2 (unknown origin) incubated for 1 hr by colloidal coomassie staining based LC-MS/MS analysis	ic50	5.8700	uM

CTD chemical–gene interactions

46 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Air Pollutants	affects expression, increases abundance, decreases expression	3
bisphenol F	increases expression, affects cotreatment	2
sodium arsenite	decreases expression, affects cotreatment, increases abundance, increases expression	2
Benzo(a)pyrene	increases expression, increases methylation	2
2,4,6-tribromophenol	decreases expression	1
methylmercuric chloride	decreases expression	1
bisphenol A	decreases expression	1
nobiletin	decreases expression, decreases reaction	1
sodium arsenate	decreases expression, decreases reaction	1
decabromobiphenyl ether	decreases expression	1
arsenite	affects binding, increases reaction	1
mono-(2-ethylhexyl)phthalate	decreases expression	1
tetrabromobisphenol A	decreases expression	1
manganese chloride	affects cotreatment, increases abundance, increases expression	1
nickel sulfate	decreases expression	1
pinosylvin	decreases expression	1
CGP 52608	affects binding, increases reaction	1
2,2’,4,4’-tetrabromodiphenyl ether	decreases expression	1
pentabrominated diphenyl ether 100	decreases expression	1
hexabrominated diphenyl ether 153	decreases expression	1
bisphenol AF	increases expression	1
Temozolomide	increases expression	1
Arsenic	increases expression, affects cotreatment, increases abundance	1
Cadmium	decreases expression, increases abundance	1
Carmustine	increases expression	1
Copper	affects binding, decreases expression	1
Dichlorodiphenyl Dichloroethylene	increases expression	1
Dexamethasone	affects cotreatment, increases expression	1
Disulfiram	affects binding, decreases expression	1
Diuron	decreases expression	1

ChEMBL screening assays

7 unique, capped per target: 7 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL5652498	Binding	Binding affinity to human SNRPB2 incubated for 45 mins by Kinobead based pull down assay	NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem

Cellosaurus cell lines

1 cell lines: 1 cancer cell line

First 10 cell lines (id-ordered, not curated):

Cellosaurus	Name	Category	Sex
CVCL_B2GW	Abcam HeLa SNRPB2 KO	Cancer cell line	Female

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.