BRD3OS

Summary

BRD3OS (BRD3 opposite strand, HGNC:24742) is a protein-coding gene on chromosome 9q34.2, encoding Uncharacterized protein BRD3OS (A0A1B0GUI7).

At a glance

• GWAS associations: 3
• Clinical variants (ClinVar): 3 total
• MANE Select transcript: NM_001355256

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:24742
Approved symbol	BRD3OS
Name	BRD3 opposite strand
Location	9q34.2
Locus type	gene with protein product
Status	Approved
Aliases	FLJ35348, bA374P20.3, SERLOC
Ensembl gene	ENSG00000235106
Ensembl biotype	protein_coding
Entrez	266655

Gene structure

Transcript identifiers

Ensembl transcripts: 13 — 9 protein_coding, 4 protein_coding_CDS_not_defined

ENST00000432807, ENST00000550853, ENST00000552018, ENST00000603928, ENST00000605164, ENST00000624381, ENST00000906125, ENST00000906126, ENST00000906127, ENST00000922048, ENST00000922049, ENST00000922050, ENST00000922051

RefSeq mRNA: 1 — MANE Select: NM_001355256 NM_001355256

CCDS: CCDS87707

Canonical transcript exons

ENST00000603928 — 3 exons

Exon	Start	End
ENSE00001598635	134025481	134025536
ENSE00001614819	134025845	134026090
ENSE00003660396	134026208	134031587

Expression profiles

Bgee: expression breadth ubiquitous, 274 present calls, max score 93.83.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 18.3312 / max 109.5274, expressed in 1754 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
99297	17.5390	1747
99296	0.5053	300
205655	0.2869	58

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
bronchial epithelial cell	CL:0002328	93.83	gold quality
epithelium of bronchus	UBERON:0002031	92.21	gold quality
buccal mucosa cell	CL:0002336	91.97	silver quality
bronchus	UBERON:0002185	91.63	gold quality
middle temporal gyrus	UBERON:0002771	90.94	gold quality
right frontal lobe	UBERON:0002810	90.45	gold quality
prefrontal cortex	UBERON:0000451	90.11	gold quality
adenohypophysis	UBERON:0002196	89.75	gold quality
cortical plate	UBERON:0005343	89.45	gold quality
amygdala	UBERON:0001876	89.43	gold quality
cingulate cortex	UBERON:0003027	89.28	gold quality
pituitary gland	UBERON:0000007	89.24	gold quality
anterior cingulate cortex	UBERON:0009835	89.12	gold quality
temporal lobe	UBERON:0001871	88.98	gold quality
corpus epididymis	UBERON:0004359	88.91	gold quality
entorhinal cortex	UBERON:0002728	88.88	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	88.87	gold quality
nucleus accumbens	UBERON:0001882	88.84	gold quality
neocortex	UBERON:0001950	88.83	gold quality
frontal cortex	UBERON:0001870	88.68	gold quality
cerebral cortex	UBERON:0000956	88.57	gold quality
primary visual cortex	UBERON:0002436	88.47	gold quality
Ammon’s horn	UBERON:0001954	88.40	gold quality
caudate nucleus	UBERON:0001873	88.30	gold quality
right uterine tube	UBERON:0001302	88.24	gold quality
telencephalon	UBERON:0001893	88.22	gold quality
Brodmann (1909) area 9	UBERON:0013540	88.22	gold quality
forebrain	UBERON:0001890	88.21	gold quality
secondary oocyte	CL:0000655	87.82	gold quality
ventricular zone	UBERON:0003053	87.79	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.10

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• Results identified LINC00094 to be downregulated in the lung squamous cell carcinoma tissues of smoking patients and may play an important role in diagnosis and prognosis. (PMID:28949095)

Cross-species orthologs

0 orthologs

Protein

Protein identifiers

Uncharacterized protein BRD3OS — A0A1B0GUI7 (reviewed: A0A1B0GUI7)

Alternative names: BRD3 opposite strand protein, Long intergenic non-protein coding RNA 94, Non-protein coding RNA 94

All UniProt accessions (1): A0A1B0GUI7

RefSeq proteins (1): NP_001342185* (*=MANE)

Domains & families (InterPro)

UniProt features (1 total): chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A0A1B0GUI7-F1	67.59	0.00

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 72 (showing top): LUCAS_HNF4A_TARGETS_DN, DOUGLAS_BMI1_TARGETS_UP, STEIN_ESRRA_TARGETS_DN, MOREAUX_MULTIPLE_MYELOMA_BY_TACI_UP, CHICAS_RB1_TARGETS_SENESCENT, FORTSCHEGGER_PHF8_TARGETS_DN, PHONG_TNF_RESPONSE_VIA_P38_COMPLETE, BLUM_RESPONSE_TO_SALIRASIB_DN, chr9q34, ARID5B_TARGET_GENES, CEBPZ_TARGET_GENES, KAT2A_TARGET_GENES, KLF14_TARGET_GENES, MEF2D_TARGET_GENES, SFMBT1_TARGET_GENES

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

68 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
BRD3OS	TMEM50A	O95807	470
BRD3OS	CEP68	Q76N32	434
BRD3OS	LRP5L	A4QPB2	431
BRD3OS	FERRY3	Q9NQ89	419
BRD3OS	GOLT1B	Q9Y3E0	357
BRD3OS	RWDD3	Q9Y3V2	348
BRD3OS	SH3GL2	Q99962	316
BRD3OS	PARP11	Q9NR21	300
BRD3OS	ALG1L2	C9J202	297
BRD3OS	BRD3	Q15059	247
BRD3OS	SAXO4	Q7Z5V6	234
BRD3OS	CDON	Q4KMG0	221
BRD3OS	DLC1	Q96QB1	220
BRD3OS	AARD	Q4LEZ3	220
BRD3OS	ANTXR2	P58335	218

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: A0A1B0GUI7, A1DL98, A1L1K4, A4V8B4, A6QLJ4, A6ZMG4, A6ZR60, A7NVJ4, A9JR56, B3LLZ8, C5E1C7, C7GWA2, C8ZEW0, O13916, O60153, P0C2W9, P15130, P16135, P20486, P27271, P28974, P35198, P40063, P84395, Q04438, Q28EW5, Q28GG3, Q4V853, Q5FVD7, Q5R4F8, Q5R977, Q5RD94, Q5U550, Q66657, Q68EK9, Q68FR5, Q6AX78, Q6C3T0, Q751I6, Q7T2A3

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

315 predictions. Top by Δscore:

Variant	Effect	Δscore
9:134032165:TCTG:T	acceptor_gain	0.8800
9:134033701:CTTCT:C	acceptor_gain	0.8800
9:134032166:C:G	acceptor_gain	0.8400
9:134034053:C:CC	acceptor_gain	0.8000
9:134033706:C:CC	acceptor_gain	0.7900
9:134033704:CT:C	acceptor_gain	0.7600
9:134033702:TTCT:T	acceptor_gain	0.7200
9:134033453:C:CC	acceptor_gain	0.7100
9:134033703:TCT:T	acceptor_gain	0.6700
9:134033704:CTC:C	acceptor_gain	0.6700
9:134033705:TCT:T	acceptor_gain	0.6700
9:134033919:A:T	donor_gain	0.6700
9:134033702:TTCTC:T	acceptor_loss	0.6500
9:134033703:TCTCT:T	acceptor_loss	0.6500
9:134033705:TC:T	acceptor_loss	0.6500
9:134033706:C:CA	acceptor_loss	0.6500
9:134033707:T:A	acceptor_loss	0.6500
9:134033715:CA:C	acceptor_loss	0.6300
9:134033716:A:T	acceptor_loss	0.6300
9:134033710:GGAGA:G	acceptor_loss	0.6100
9:134033711:GAGA:G	acceptor_loss	0.6100
9:134033449:AAAA:A	acceptor_gain	0.6000
9:134033709:TGGA:T	acceptor_loss	0.6000
9:134034050:TGA:T	acceptor_gain	0.6000
9:134032164:CT:C	acceptor_gain	0.5700
9:134034052:A:AC	acceptor_gain	0.5700
9:134033522:C:CT	donor_gain	0.5600
9:134033780:A:T	acceptor_gain	0.5600
9:134032164:C:A	acceptor_gain	0.5500
9:134033922:A:C	donor_gain	0.5300

AlphaMissense

539 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
9:134026935:T:A	V63D	0.952
9:134026834:G:C	W29C	0.930
9:134026834:G:T	W29C	0.930
9:134026832:T:A	W29R	0.921
9:134026832:T:C	W29R	0.921
9:134026808:T:G	Y21D	0.914
9:134026917:G:T	G57V	0.908
9:134026815:A:T	D23V	0.905
9:134026895:A:C	S50R	0.903
9:134026897:C:A	S50R	0.903
9:134026897:C:G	S50R	0.903
9:134026921:T:A	N58K	0.888
9:134026921:T:G	N58K	0.888
9:134026779:C:A	A11D	0.883
9:134026929:T:A	I61N	0.880
9:134026920:A:T	N58I	0.878
9:134026821:C:T	S25F	0.872
9:134026929:T:G	I61S	0.863
9:134026806:G:C	R20P	0.861
9:134026821:C:A	S25Y	0.859
9:134026815:A:C	D23A	0.844
9:134026820:T:C	S25P	0.842
9:134026842:A:C	Q32P	0.842
9:134026990:C:G	C81W	0.836
9:134026904:T:G	Y53D	0.835
9:134026809:A:C	Y21S	0.831
9:134026889:A:C	S48R	0.830
9:134026891:C:A	S48R	0.830
9:134026891:C:G	S48R	0.830
9:134026833:G:C	W29S	0.825

dbSNP variants (sampled 300 via entrez): RS1000163096 (9:134030144 G>A), RS1000258945 (9:134025556 TG>T), RS1000288628 (9:134025779 G>C), RS1001095836 (9:134025407 A>T), RS1001932257 (9:134026597 C>G,T), RS1001957939 (9:134031430 G>A), RS1001970082 (9:134026816 C>T), RS1002238570 (9:134031275 C>A,T), RS1002362162 (9:134025883 G>A), RS1002827296 (9:134027346 C>A), RS1002903400 (9:134026075 G>T), RS1003103851 (9:134027123 C>A), RS1003510175 (9:134032072 G>A,C), RS1003878326 (9:134024868 G>A,C), RS1003950297 (9:134024571 C>T)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

3 associations (top):

Study	Trait	p-value
GCST90002386_440	High light scatter reticulocyte percentage of red cells	3.000000e-09
GCST90002400_694	Plateletcrit	4.000000e-10
GCST90002401_199	Platelet distribution width	1.000000e-15

EFO canonical traits (2, from GWAS)

EFO ID	Trait name
EFO:0007985	platelet crit
EFO:0007984	platelet component distribution width

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

25 total (human), top 25 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects expression, increases expression	3
Smoke	decreases expression, increases abundance, increases expression	2
aristolochic acid I	decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	affects methylation	1
tris(1,3-dichloro-2-propyl)phosphate	decreases expression	1
sodium arsenite	decreases expression	1
ferrous chloride	decreases expression	1
avobenzone	decreases expression	1
di-n-butylphosphoric acid	affects expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	decreases expression, affects cotreatment	1
dorsomorphin	decreases expression, affects cotreatment	1
Sunitinib	increases expression	1
Air Pollutants	increases abundance, increases expression	1
Benzo(a)pyrene	affects methylation	1
Phenylmercuric Acetate	affects cotreatment, decreases expression	1
Silicon Dioxide	decreases expression	1
Thiram	decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Tretinoin	increases expression	1
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide	decreases expression	1
Gold Compounds	increases expression	1
Cadmium Chloride	decreases expression	1
Acrylamide	decreases expression	1
tert-Butylhydroperoxide	decreases expression	1

Clinical trials (associated diseases)

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