UPF3A | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
endothelial cell	34 studies	28% ± 11%	Explore
fibroblast	21 studies	23% ± 8%	Explore
natural killer cell	18 studies	20% ± 4%	Explore
B cell	16 studies	23% ± 6%	Explore
oligodendrocyte precursor cell	16 studies	43% ± 20%	Explore
smooth muscle cell	15 studies	20% ± 4%	Explore
astrocyte	14 studies	32% ± 15%	Explore
endothelial cell of lymphatic vessel	13 studies	25% ± 6%	Explore
ciliated cell	13 studies	34% ± 14%	Explore
oligodendrocyte	12 studies	33% ± 14%	Explore
glutamatergic neuron	11 studies	39% ± 24%	Explore
naive B cell	10 studies	18% ± 3%	Explore
CD16-negative, CD56-bright natural killer cell, human	10 studies	23% ± 6%	Explore
CD8-positive, alpha-beta T cell	10 studies	22% ± 6%	Explore
memory B cell	10 studies	20% ± 4%	Explore
endothelial cell of vascular tree	10 studies	21% ± 8%	Explore
naive thymus-derived CD8-positive, alpha-beta T cell	9 studies	19% ± 7%	Explore
GABAergic neuron	9 studies	48% ± 20%	Explore
CD16-positive, CD56-dim natural killer cell, human	9 studies	22% ± 4%	Explore
capillary endothelial cell	9 studies	21% ± 3%	Explore
myofibroblast cell	9 studies	22% ± 6%	Explore
endothelial cell of artery	9 studies	20% ± 3%	Explore
pericyte	9 studies	22% ± 5%	Explore
connective tissue cell	8 studies	24% ± 5%	Explore
vein endothelial cell	8 studies	21% ± 7%	Explore
adipocyte	8 studies	25% ± 7%	Explore
regulatory T cell	8 studies	18% ± 3%	Explore
CD4-positive, alpha-beta T cell	7 studies	21% ± 5%	Explore
abnormal cell	7 studies	28% ± 10%	Explore
neuron	7 studies	35% ± 17%	Explore
retinal ganglion cell	7 studies	35% ± 18%	Explore
epithelial cell	7 studies	40% ± 18%	Explore
amacrine cell	7 studies	30% ± 11%	Explore
CD8-positive, alpha-beta memory T cell	6 studies	23% ± 8%	Explore
naive thymus-derived CD4-positive, alpha-beta T cell	6 studies	19% ± 5%	Explore
effector memory CD8-positive, alpha-beta T cell	6 studies	21% ± 4%	Explore
interneuron	6 studies	49% ± 20%	Explore
macrophage	6 studies	25% ± 5%	Explore
basal cell	6 studies	30% ± 13%	Explore
retina horizontal cell	6 studies	28% ± 10%	Explore
plasmacytoid dendritic cell	6 studies	23% ± 6%	Explore
gamma-delta T cell	6 studies	24% ± 15%	Explore
T cell	5 studies	19% ± 3%	Explore
hematopoietic precursor cell	5 studies	25% ± 12%	Explore
CD4-positive, alpha-beta memory T cell	5 studies	20% ± 3%	Explore
mature NK T cell	5 studies	19% ± 3%	Explore
microglial cell	5 studies	25% ± 6%	Explore
lymphocyte	5 studies	21% ± 7%	Explore
cardiac muscle cell	5 studies	26% ± 6%	Explore
plasmablast	4 studies	46% ± 15%	Explore
ionocyte	4 studies	29% ± 9%	Explore
effector CD8-positive, alpha-beta T cell	4 studies	18% ± 1%	Explore
leukocyte	4 studies	20% ± 3%	Explore
exhausted T cell	4 studies	20% ± 8%	Explore
progenitor cell	4 studies	24% ± 5%	Explore
granule cell	4 studies	28% ± 8%	Explore
mucosal invariant T cell	4 studies	17% ± 1%	Explore
precursor B cell	4 studies	27% ± 8%	Explore
pro-B cell	4 studies	27% ± 4%	Explore
type I pneumocyte	4 studies	22% ± 6%	Explore
retinal cone cell	4 studies	28% ± 9%	Explore
retinal rod cell	4 studies	18% ± 3%	Explore
T follicular helper cell	4 studies	16% ± 1%	Explore
enteroendocrine cell	4 studies	26% ± 11%	Explore
pancreatic A cell	3 studies	31% ± 7%	Explore
classical monocyte	3 studies	25% ± 8%	Explore
non-classical monocyte	3 studies	24% ± 7%	Explore
kidney distal convoluted tubule epithelial cell	3 studies	17% ± 2%	Explore
neural crest cell	3 studies	22% ± 1%	Explore
retinal bipolar neuron	3 studies	32% ± 10%	Explore
GABAergic interneuron	3 studies	35% ± 7%	Explore
myeloid cell	3 studies	25% ± 8%	Explore
immature B cell	3 studies	23% ± 2%	Explore
Mueller cell	3 studies	22% ± 3%	Explore
GABAergic amacrine cell	3 studies	29% ± 4%	Explore
OFF-bipolar cell	3 studies	22% ± 5%	Explore
ON-bipolar cell	3 studies	23% ± 4%	Explore
glycinergic amacrine cell	3 studies	24% ± 4%	Explore
rod bipolar cell	3 studies	32% ± 4%	Explore
luminal hormone-sensing cell of mammary gland	3 studies	19% ± 3%	Explore
dendritic cell	3 studies	33% ± 15%	Explore
effector memory CD4-positive, alpha-beta T cell	3 studies	20% ± 5%	Explore
megakaryocyte-erythroid progenitor cell	3 studies	37% ± 22%	Explore
intestinal crypt stem cell	3 studies	21% ± 1%	Explore
transit amplifying cell	3 studies	32% ± 16%	Explore
goblet cell	3 studies	23% ± 2%	Explore
double negative thymocyte	3 studies	30% ± 17%	Explore
hematopoietic stem cell	3 studies	20% ± 2%	Explore
platelet	3 studies	17% ± 1%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
brain	15 studies	37% ± 19%	Explore
lung	9 studies	24% ± 9%	Explore
eye	7 studies	25% ± 8%	Explore
peripheral blood	6 studies	26% ± 12%	Explore
intestine	5 studies	23% ± 9%	Explore
heart	4 studies	21% ± 3%	Explore
adipose	4 studies	21% ± 3%	Explore
bone marrow	3 studies	20% ± 3%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
bladder	100%	2989.43	21 / 21	100%	18.38	504 / 504
esophagus	100%	2860.85	1445 / 1445	100%	19.05	183 / 183
ovary	100%	3382.67	180 / 180	100%	19.03	430 / 430
prostate	100%	3494.04	245 / 245	100%	23.36	502 / 502
uterus	100%	3807.32	170 / 170	100%	19.82	459 / 459
brain	100%	4464.02	2641 / 2642	100%	33.34	705 / 705
thymus	100%	5363.06	653 / 653	100%	32.18	604 / 605
intestine	100%	3110.79	966 / 966	100%	19.67	526 / 527
stomach	100%	2467.21	359 / 359	100%	19.54	285 / 286
breast	100%	3433.48	459 / 459	100%	20.42	1113 / 1118
lung	100%	2611.74	578 / 578	99%	15.21	1147 / 1155
pancreas	100%	2144.78	327 / 328	98%	14.92	175 / 178
kidney	100%	2628.98	89 / 89	98%	14.32	883 / 901
adrenal gland	100%	2890.72	258 / 258	98%	17.32	225 / 230
skin	100%	2801.16	1809 / 1809	97%	16.87	456 / 472
liver	100%	1502.35	226 / 226	94%	9.98	382 / 406
adipose	100%	3156.35	1204 / 1204	0%	0	0 / 0
lymph node	0%	0	0 / 0	100%	21.02	29 / 29
spleen	100%	3144.84	241 / 241	0%	0	0 / 0
tonsil	0%	0	0 / 0	100%	14.53	45 / 45
ureter	0%	0	0 / 0	100%	5.63	1 / 1
blood vessel	100%	2866.22	1334 / 1335	0%	0	0 / 0
muscle	99%	1706.73	798 / 803	0%	0	0 / 0
heart	98%	1707.78	843 / 861	0%	0	0 / 0
eye	0%	0	0 / 0	89%	12.64	71 / 80
peripheral blood	37%	739.78	343 / 929	0%	0	0 / 0
abdomen	0%	0	0 / 0	0%	0	0 / 0
bone marrow	0%	0	0 / 0	0%	0	0 / 0
diaphragm	0%	0	0 / 0	0%	0	0 / 0
gingiva	0%	0	0 / 0	0%	0	0 / 0
nasal cavity	0%	0	0 / 0	0%	0	0 / 0
nasopharynx	0%	0	0 / 0	0%	0	0 / 0
nose	0%	0	0 / 0	0%	0	0 / 0
placenta	0%	0	0 / 0	0%	0	0 / 0
spinal column	0%	0	0 / 0	0%	0	0 / 0

III. Associated gene sets

GO_1905746	Biological process	positive regulation of mRNA cis splicing, via spliceosome
GO_0007283	Biological process	spermatogenesis
GO_0045727	Biological process	positive regulation of translation
GO_2000623	Biological process	negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO_0000184	Biological process	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO_0001701	Biological process	in utero embryonic development
GO_0051028	Biological process	mRNA transport
GO_0043231	Cellular component	intracellular membrane-bounded organelle
GO_0005730	Cellular component	nucleolus
GO_0035145	Cellular component	exon-exon junction complex
GO_0005654	Cellular component	nucleoplasm
GO_0005829	Cellular component	cytosol
GO_0043005	Cellular component	neuron projection
GO_0005737	Cellular component	cytoplasm
GO_0005634	Cellular component	nucleus
GO_0042162	Molecular function	telomeric DNA binding
GO_0005515	Molecular function	protein binding
GO_0003729	Molecular function	mRNA binding

IV. Literature review

[source]

Gene name	UPF3A
Protein name	UPF3A regulator of nonsense mediated mRNA decay UPF3 regulator of nonsense transcripts homolog A (Yeast), isoform CRA_a (cDNA FLJ39708 fis, clone SMINT2012735, highly similar to Regulator of nonsense transcripts 3A) Regulator of nonsense transcripts 3A (Nonsense mRNA reducing factor 3A) (Up-frameshift suppressor 3 homolog A) (hUpf3)
Synonyms	UPF3 hCG_2011952 RENT3A
Description	FUNCTION: Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with the nuclear exon junction complex (EJC) and serving as link between the EJC core and NMD machinery. Recruits UPF2 at the cytoplasmic side of the nuclear envelope and the subsequent formation of an UPF1-UPF2-UPF3 surveillance complex (including UPF1 bound to release factors at the stalled ribosome) is believed to activate NMD. However, UPF3A is shown to be only marginally active in NMD as compared to UPF3B. Binds spliced mRNA upstream of exon-exon junctions. In vitro, weakly stimulates translation. .
Accessions	A0A087WZ33 Q9H1J1 ENST00000492270.1 ENST00000351487.5 [Q9H1J1-2] ENST00000375299.8 [Q9H1J1-1] B3KUE7

UPF3A report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review