SMG1 | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
natural killer cell	29 studies	24% ± 7%	Explore
endothelial cell	29 studies	32% ± 13%	Explore
B cell	25 studies	26% ± 12%	Explore
CD8-positive, alpha-beta T cell	21 studies	25% ± 6%	Explore
macrophage	20 studies	28% ± 11%	Explore
T cell	19 studies	26% ± 9%	Explore
CD4-positive, alpha-beta T cell	18 studies	23% ± 5%	Explore
fibroblast	17 studies	25% ± 8%	Explore
regulatory T cell	17 studies	23% ± 5%	Explore
gamma-delta T cell	16 studies	24% ± 8%	Explore
memory B cell	15 studies	24% ± 7%	Explore
CD16-positive, CD56-dim natural killer cell, human	14 studies	27% ± 8%	Explore
CD16-negative, CD56-bright natural killer cell, human	14 studies	26% ± 7%	Explore
pericyte	13 studies	23% ± 8%	Explore
classical monocyte	12 studies	25% ± 10%	Explore
naive B cell	12 studies	26% ± 5%	Explore
astrocyte	12 studies	37% ± 17%	Explore
dendritic cell	12 studies	40% ± 23%	Explore
smooth muscle cell	12 studies	23% ± 7%	Explore
CD8-positive, alpha-beta memory T cell	11 studies	26% ± 5%	Explore
basal cell	11 studies	30% ± 17%	Explore
non-classical monocyte	11 studies	26% ± 12%	Explore
microglial cell	11 studies	35% ± 13%	Explore
mucosal invariant T cell	11 studies	21% ± 4%	Explore
oligodendrocyte	11 studies	31% ± 13%	Explore
monocyte	10 studies	24% ± 8%	Explore
type I pneumocyte	10 studies	25% ± 9%	Explore
CD4-positive, alpha-beta memory T cell	10 studies	22% ± 5%	Explore
glutamatergic neuron	10 studies	45% ± 23%	Explore
effector memory CD8-positive, alpha-beta T cell	10 studies	26% ± 8%	Explore
mature NK T cell	10 studies	24% ± 8%	Explore
plasmacytoid dendritic cell	10 studies	25% ± 13%	Explore
ciliated cell	9 studies	28% ± 12%	Explore
GABAergic neuron	9 studies	40% ± 21%	Explore
oligodendrocyte precursor cell	9 studies	32% ± 15%	Explore
epithelial cell	9 studies	41% ± 21%	Explore
adipocyte	9 studies	33% ± 13%	Explore
endothelial cell of lymphatic vessel	8 studies	26% ± 10%	Explore
naive thymus-derived CD4-positive, alpha-beta T cell	8 studies	24% ± 6%	Explore
naive thymus-derived CD8-positive, alpha-beta T cell	8 studies	22% ± 7%	Explore
conventional dendritic cell	7 studies	30% ± 15%	Explore
myeloid cell	7 studies	35% ± 14%	Explore
abnormal cell	7 studies	23% ± 13%	Explore
endothelial cell of vascular tree	7 studies	23% ± 11%	Explore
leukocyte	6 studies	23% ± 4%	Explore
capillary endothelial cell	6 studies	20% ± 5%	Explore
neuron	6 studies	35% ± 16%	Explore
interneuron	6 studies	46% ± 23%	Explore
lymphocyte	6 studies	35% ± 12%	Explore
club cell	6 studies	27% ± 8%	Explore
endothelial cell of artery	6 studies	21% ± 3%	Explore
T follicular helper cell	6 studies	21% ± 3%	Explore
type II pneumocyte	6 studies	25% ± 8%	Explore
goblet cell	6 studies	30% ± 21%	Explore
respiratory goblet cell	5 studies	30% ± 10%	Explore
effector CD8-positive, alpha-beta T cell	5 studies	19% ± 4%	Explore
precursor B cell	5 studies	29% ± 3%	Explore
mast cell	5 studies	33% ± 22%	Explore
immature B cell	5 studies	31% ± 12%	Explore
cardiac muscle cell	5 studies	41% ± 12%	Explore
vein endothelial cell	5 studies	28% ± 12%	Explore
granule cell	4 studies	32% ± 6%	Explore
pro-B cell	4 studies	24% ± 3%	Explore
plasma cell	4 studies	36% ± 13%	Explore
mononuclear phagocyte	4 studies	26% ± 11%	Explore
effector memory CD4-positive, alpha-beta T cell	4 studies	28% ± 9%	Explore
innate lymphoid cell	4 studies	24% ± 3%	Explore
myofibroblast cell	4 studies	28% ± 10%	Explore
effector memory CD8-positive, alpha-beta T cell, terminally differentiated	4 studies	23% ± 6%	Explore
ionocyte	3 studies	27% ± 6%	Explore
secretory cell	3 studies	25% ± 5%	Explore
exhausted T cell	3 studies	34% ± 9%	Explore
hematopoietic precursor cell	3 studies	31% ± 11%	Explore
plasmablast	3 studies	36% ± 16%	Explore
GABAergic interneuron	3 studies	33% ± 6%	Explore
glial cell	3 studies	24% ± 4%	Explore
progenitor cell	3 studies	24% ± 5%	Explore
retinal ganglion cell	3 studies	21% ± 5%	Explore
mesothelial cell	3 studies	25% ± 5%	Explore
erythroblast	3 studies	20% ± 4%	Explore
luminal hormone-sensing cell of mammary gland	3 studies	22% ± 4%	Explore
hepatocyte	3 studies	56% ± 20%	Explore
connective tissue cell	3 studies	19% ± 1%	Explore
ependymal cell	3 studies	31% ± 12%	Explore
enteroendocrine cell	3 studies	18% ± 1%	Explore
alveolar macrophage	3 studies	40% ± 10%	Explore
group 3 innate lymphoid cell	3 studies	33% ± 11%	Explore
muscle cell	3 studies	41% ± 10%	Explore
transit amplifying cell	3 studies	41% ± 32%	Explore
brush cell	3 studies	23% ± 3%	Explore
keratinocyte	3 studies	31% ± 4%	Explore
double negative thymocyte	3 studies	30% ± 10%	Explore
kidney loop of Henle epithelial cell	3 studies	21% ± 6%	Explore
mucus secreting cell	3 studies	28% ± 4%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
brain	15 studies	37% ± 19%	Explore
peripheral blood	11 studies	28% ± 15%	Explore
lung	10 studies	26% ± 13%	Explore
kidney	5 studies	24% ± 5%	Explore
liver	5 studies	29% ± 13%	Explore
bone marrow	4 studies	21% ± 5%	Explore
heart	4 studies	32% ± 8%	Explore
intestine	4 studies	18% ± 2%	Explore
adipose	4 studies	26% ± 2%	Explore
breast	3 studies	20% ± 4%	Explore
skin	3 studies	21% ± 2%	Explore
lymph node	3 studies	19% ± 2%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
esophagus	100%	9773.18	1445 / 1445	100%	26.38	183 / 183
breast	100%	8858.38	459 / 459	99%	22.99	1112 / 1118
uterus	100%	10245.72	170 / 170	98%	14.78	452 / 459
lung	100%	8711.93	576 / 578	99%	14.57	1140 / 1155
bladder	100%	9334.10	21 / 21	98%	13.45	495 / 504
intestine	100%	10026.18	966 / 966	98%	14.94	517 / 527
thymus	100%	11858.13	653 / 653	98%	13.41	592 / 605
stomach	100%	7003.87	359 / 359	97%	17.18	278 / 286
prostate	100%	8833.09	245 / 245	97%	13.00	487 / 502
ovary	100%	9258.42	180 / 180	97%	9.06	417 / 430
pancreas	99%	5025.27	325 / 328	98%	13.91	174 / 178
kidney	100%	6660.40	89 / 89	95%	12.60	858 / 901
brain	96%	7350.20	2545 / 2642	99%	13.13	697 / 705
skin	100%	14632.06	1809 / 1809	95%	13.11	448 / 472
adrenal gland	100%	5938.78	258 / 258	87%	6.83	201 / 230
liver	100%	5098.06	226 / 226	76%	5.58	309 / 406
adipose	100%	9267.32	1204 / 1204	0%	0	0 / 0
blood vessel	100%	9925.57	1335 / 1335	0%	0	0 / 0
muscle	100%	23158.02	803 / 803	0%	0	0 / 0
spleen	100%	9427.67	241 / 241	0%	0	0 / 0
ureter	0%	0	0 / 0	100%	4.08	1 / 1
tonsil	0%	0	0 / 0	98%	16.31	44 / 45
lymph node	0%	0	0 / 0	97%	14.55	28 / 29
heart	96%	6310.29	823 / 861	0%	0	0 / 0
peripheral blood	82%	6703.29	763 / 929	0%	0	0 / 0
eye	0%	0	0 / 0	74%	6.67	59 / 80
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_0018105	Biological process	peptidyl-serine phosphorylation
GO_0006281	Biological process	DNA repair
GO_0032204	Biological process	regulation of telomere maintenance
GO_0006974	Biological process	DNA damage response
GO_0046854	Biological process	phosphatidylinositol phosphate biosynthetic process
GO_0000184	Biological process	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO_0006406	Biological process	mRNA export from nucleus
GO_0046777	Biological process	protein autophosphorylation
GO_0005654	Cellular component	nucleoplasm
GO_0033391	Cellular component	chromatoid body
GO_0005829	Cellular component	cytosol
GO_0005737	Cellular component	cytoplasm
GO_0005634	Cellular component	nucleus
GO_0106310	Molecular function	protein serine kinase activity
GO_0042162	Molecular function	telomeric DNA binding
GO_0004674	Molecular function	protein serine/threonine kinase activity
GO_0004672	Molecular function	protein kinase activity
GO_0046872	Molecular function	metal ion binding
GO_0005524	Molecular function	ATP binding
GO_0003723	Molecular function	RNA binding
GO_0004697	Molecular function	diacylglycerol-dependent serine/threonine kinase activity
GO_0005515	Molecular function	protein binding

IV. Literature review

[source]

Gene name	SMG1
Protein name	non-specific serine/threonine protein kinase (EC 2.7.11.1) Serine/threonine-protein kinase SMG1 (SMG-1) (hSMG-1) (EC 2.7.11.1) (Lambda/iota protein kinase C-interacting protein) (Lambda-interacting protein) (Nonsense mediated mRNA decay-associated PI3K-related kinase SMG1) SMG1 nonsense mediated mRNA decay associated PI3K related kinase
Synonyms	LIP KIAA0421 ATX
Description	FUNCTION: Serine/threonine protein kinase involved in both mRNA surveillance and genotoxic stress response pathways. Recognizes the substrate consensus sequence [ST]-Q. Plays a central role in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by phosphorylating UPF1/RENT1. Recruited by release factors to stalled ribosomes together with SMG8 and SMG9 (forming the SMG1C protein kinase complex), and UPF1 to form the transient SURF (SMG1-UPF1-eRF1-eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Also acts as a genotoxic stress-activated protein kinase that displays some functional overlap with ATM. Can phosphorylate p53/TP53 and is required for optimal p53/TP53 activation after cellular exposure to genotoxic stress. Its depletion leads to spontaneous DNA damage and increased sensitivity to ionizing radiation (IR). May activate PRKCI but not PRKCZ. .
Accessions	ENST00000565324.5 I3L400 E9PNP6 A0A087X1K8 H3BPS6 I3L144 ENST00000561947.5 ENST00000568038.1 ENST00000565224.5 H3BQN7 ENST00000566328.2 J3KRA9 I3L0W2 ENST00000446231.7 [Q96Q15-1] ENST00000563235.5 ENST00000563836.1 ENST00000569122.1 H3BR09 ENST00000532700.6 Q96Q15

SMG1 report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review