Single cell type - SRSF7 - The Human Protein Atlas

SRSF7

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GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	SRSF7
Gene descriptionⁱ Full gene name according to HGNC.	Serine and arginine rich splicing factor 7
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Plasma proteins
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.	Non-specific - Transcription (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Low cell type specificity
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.21
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Low cell type specificity
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types RNA single cell type specificity: Low cell type specificity

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

SRSF7 is part of cluster 80 Non-specific - Transcription with confidenceⁱ 1
184 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
UBE2S	Ubiquitin conjugating enzyme E2 S	0.7804	80
GTF2B	General transcription factor IIB	0.7736	80
TBCC	Tubulin folding cofactor C	0.7553	78
IFNG	Interferon gamma	0.7010	19
TSPYL2	TSPY like 2	0.6958	78
NSMCE3	NSE3 homolog, SMC5-SMC6 complex component	0.6864	78
IL2	Interleukin 2	0.6817	78
DNAJA1	DnaJ heat shock protein family (Hsp40) member A1	0.6760	80
H2AX	H2A.X variant histone	0.6749	80
RSRP1	Arginine and serine rich protein 1	0.6656	80
WDR74	WD repeat domain 74	0.6595	80
NOP56	NOP56 ribonucleoprotein	0.6591	15
HSPA8	Heat shock protein family A (Hsp70) member 8	0.6567	80
SRSF2	Serine and arginine rich splicing factor 2	0.6521	80
SOCS1	Suppressor of cytokine signaling 1	0.6499	78

IMMUNE CELLS

SRSF7 is part of cluster 13 Non-specific - Mitochondria with confidenceⁱ 0.99
458 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ACOX3	Acyl-CoA oxidase 3, pristanoyl	1.0000	13
NDRG1	N-myc downstream regulated 1	0.9762	13
NDUFS4	NADH:ubiquinone oxidoreductase subunit S4	0.9762	13
QDPR	Quinoid dihydropteridine reductase	0.9762	13
SKIC8	SKI8 subunit of superkiller complex	0.9762	13
PEMT	Phosphatidylethanolamine N-methyltransferase	0.9762	13
TMEM39B	Transmembrane protein 39B	0.9762	13
PCCB	Propionyl-CoA carboxylase subunit beta	0.9762	13
NUTF2	Nuclear transport factor 2	0.9762	13
UBE2K	Ubiquitin conjugating enzyme E2 K	0.9762	13
SPAG6	Sperm associated antigen 6	0.9762	13
BLTP2	Bridge-like lipid transfer protein family member 2	0.9524	13
KDELR1	KDEL endoplasmic reticulum protein retention receptor 1	0.9524	13
TMEM104	Transmembrane protein 104	0.9524	13
DCPS	Decapping enzyme, scavenger	0.9524	13

Adipocytes	378.9 nTPM
Breast	472.4 nTPM
Adipose tissue	285.3 nTPM

Alveolar cells type 1	175.2 nTPM
Lung	175.2 nTPM

Alveolar cells type 2	288.7 nTPM
Lung	288.7 nTPM

Astrocytes	29.7 nTPM
Brain	29.7 nTPM

B-cells	382.8 nTPM
Adipose tissue	639.5 nTPM
Lymph node	526.2 nTPM
Lung	499.0 nTPM
Stomach	478.3 nTPM
Salivary gland	453.4 nTPM
Skin	415.0 nTPM
Thymus	394.1 nTPM
Spleen	332.5 nTPM
Esophagus	306.8 nTPM
Kidney	260.0 nTPM
PBMC	247.8 nTPM
Liver	222.2 nTPM
Bone marrow	202.0 nTPM

Basal squamous epithelial cells	173.3 nTPM
Esophagus	173.3 nTPM

Ciliated cells	134.3 nTPM
Fallopian tube	207.9 nTPM
Bronchus	117.8 nTPM
Lung	110.1 nTPM
Endometrium	101.4 nTPM

Club cells	163.9 nTPM
Bronchus	191.1 nTPM
Lung	177.1 nTPM
Prostate	123.5 nTPM

Dendritic cells	605.8 nTPM
Adipose tissue	1010.1 nTPM
PBMC	201.5 nTPM

Endothelial cells	259.0 nTPM
Fallopian tube	525.6 nTPM
Skeletal muscle	449.8 nTPM
Prostate	340.4 nTPM
Ovary	309.1 nTPM
Lung	295.1 nTPM
Vascular	292.9 nTPM
Placenta	272.5 nTPM
Breast	270.7 nTPM
Thymus	233.6 nTPM
Esophagus	233.0 nTPM
Skin	230.4 nTPM
Testis	215.5 nTPM
Salivary gland	201.5 nTPM
Pancreas	186.1 nTPM
Endometrium	179.7 nTPM
Heart muscle	170.0 nTPM
Tongue	152.0 nTPM
Liver	104.6 nTPM

Enteroendocrine cells	156.2 nTPM
Colon	212.4 nTPM
Rectum	129.1 nTPM
Small intestine	127.0 nTPM

Erythroid cells	155.1 nTPM
Bone marrow	156.4 nTPM
Liver	153.8 nTPM

Fibroblasts	264.9 nTPM
Lung	490.4 nTPM
Fallopian tube	487.0 nTPM
Breast	429.2 nTPM
Stomach	400.6 nTPM
Esophagus	291.6 nTPM
Skeletal muscle	274.2 nTPM
Adipose tissue	260.7 nTPM
Pancreas	234.3 nTPM
Placenta	225.5 nTPM
Salivary gland	207.6 nTPM
Vascular	200.5 nTPM
Prostate	182.8 nTPM
Thymus	173.5 nTPM
Skin	147.5 nTPM
Liver	137.6 nTPM
Heart muscle	95.6 nTPM

Granulocytes	455.0 nTPM
Fallopian tube	763.7 nTPM
Lung	329.7 nTPM
Tongue	271.6 nTPM

Intestinal goblet cells	167.3 nTPM
Colon	257.4 nTPM
Small intestine	137.2 nTPM
Rectum	107.2 nTPM

Bipolar cells	125.5 nTPM
Eye	125.5 nTPM

Cholangiocytes	89.7 nTPM
Liver	89.7 nTPM

Collecting duct cells	77.8 nTPM
Kidney	77.8 nTPM

Cone photoreceptor cells	100.2 nTPM
Eye	100.2 nTPM

Lymphatic endothelial cells	223.6 nTPM
Fallopian tube	305.3 nTPM
Ovary	141.8 nTPM

Macrophages	291.0 nTPM
Breast	1309.5 nTPM
Testis	403.6 nTPM
Endometrium	385.0 nTPM
Fallopian tube	381.3 nTPM
Adipose tissue	309.8 nTPM
Vascular	293.5 nTPM
Tongue	278.2 nTPM
Lung	273.3 nTPM
Salivary gland	268.5 nTPM
Prostate	234.8 nTPM
Skeletal muscle	200.3 nTPM
Esophagus	193.9 nTPM
Skin	181.6 nTPM
Stomach	174.9 nTPM
Kidney	154.9 nTPM
Thymus	141.3 nTPM
Pancreas	133.6 nTPM
Bone marrow	113.5 nTPM
Spleen	98.2 nTPM

Paneth cells	185.3 nTPM
Small intestine	214.1 nTPM
Colon	206.3 nTPM
Rectum	135.5 nTPM

Plasma cells	258.8 nTPM
Stomach	420.1 nTPM
Fallopian tube	333.9 nTPM
Thymus	281.8 nTPM
Salivary gland	251.1 nTPM
Liver	231.3 nTPM
Esophagus	192.3 nTPM
Spleen	183.5 nTPM
Bone marrow	176.7 nTPM

Schwann cells	404.9 nTPM
Adipose tissue	619.9 nTPM
Vascular	319.2 nTPM
Esophagus	275.6 nTPM

Serous glandular cells	161.0 nTPM
Salivary gland	180.6 nTPM
Tongue	141.4 nTPM

Smooth muscle cells	257.4 nTPM
Breast	553.1 nTPM
Fallopian tube	416.9 nTPM
Skeletal muscle	403.9 nTPM
Esophagus	283.5 nTPM
Ovary	268.7 nTPM
Salivary gland	261.6 nTPM
Skin	258.3 nTPM
Adipose tissue	235.6 nTPM
Placenta	233.7 nTPM
Lung	211.6 nTPM
Endometrium	206.8 nTPM
Prostate	186.7 nTPM
Thymus	182.8 nTPM
Liver	157.1 nTPM
Tongue	129.9 nTPM
Vascular	127.6 nTPM

Suprabasal keratinocytes	197.0 nTPM
Skin	240.1 nTPM
Tongue	153.9 nTPM

T-cells	708.0 nTPM
Breast	1985.6 nTPM
Fallopian tube	1228.5 nTPM
Adipose tissue	1163.7 nTPM
Colon	1074.4 nTPM
Tongue	776.1 nTPM
Prostate	761.3 nTPM
Endometrium	751.2 nTPM
Stomach	728.8 nTPM
Vascular	664.1 nTPM
Skeletal muscle	631.4 nTPM
Lung	619.2 nTPM
Lymph node	607.2 nTPM
Skin	554.1 nTPM
Salivary gland	551.1 nTPM
Thymus	524.1 nTPM
Esophagus	520.8 nTPM
Spleen	519.3 nTPM
Liver	352.3 nTPM
Kidney	336.9 nTPM
Bone marrow	275.1 nTPM
PBMC	243.2 nTPM

Undifferentiated cells	205.6 nTPM
Colon	284.4 nTPM
Small intestine	179.0 nTPM
Rectum	153.4 nTPM

Amygdala excitatory	64.9 nTPM
Cerebral cortex	88.0 nTPM
Hippocampus	83.4 nTPM
Basal ganglia	76.3 nTPM
Amygdala	56.6 nTPM
Thalamus	52.2 nTPM
Hypothalamus	32.9 nTPM

Astrocyte	47.1 nTPM
Cerebral cortex	68.0 nTPM
Basal ganglia	53.2 nTPM
Thalamus	50.4 nTPM
Midbrain	50.3 nTPM
Hippocampus	49.0 nTPM
Amygdala	47.0 nTPM
Pons	44.5 nTPM
Cerebellum	41.6 nTPM
Medulla oblongata	40.5 nTPM
Hypothalamus	40.0 nTPM
Spinal cord	33.3 nTPM

Bergmann glia	71.9 nTPM
Pons	89.2 nTPM
Cerebellum	88.3 nTPM
Medulla oblongata	38.4 nTPM

Central nervous system macrophage	151.7 nTPM
Cerebral cortex	204.7 nTPM
Cerebellum	188.7 nTPM
Hippocampus	172.0 nTPM
Spinal cord	171.3 nTPM
Amygdala	154.2 nTPM
Midbrain	152.0 nTPM
Pons	144.0 nTPM
Medulla oblongata	140.2 nTPM
Thalamus	127.5 nTPM
Hypothalamus	113.7 nTPM
Basal ganglia	100.2 nTPM

Cerebellar inhibitory	74.1 nTPM
Cerebellum	87.6 nTPM
Midbrain	83.4 nTPM
Pons	78.1 nTPM
Medulla oblongata	69.2 nTPM
Spinal cord	52.2 nTPM

Cge interneuron	70.7 nTPM
Cerebral cortex	87.6 nTPM
Midbrain	86.6 nTPM
Basal ganglia	84.1 nTPM
Hippocampus	72.0 nTPM
Amygdala	64.8 nTPM
Thalamus	61.8 nTPM
Hypothalamus	38.0 nTPM

Choroid plexus epithelial cell	61.6 nTPM
Hippocampus	108.2 nTPM
Thalamus	57.5 nTPM
Medulla oblongata	50.1 nTPM
Basal ganglia	30.4 nTPM

Committed oligodendrocyte precursor	79.4 nTPM
Cerebral cortex	110.2 nTPM
Spinal cord	103.0 nTPM
Midbrain	93.2 nTPM
Cerebellum	87.2 nTPM
Basal ganglia	87.1 nTPM
Pons	84.1 nTPM
Hippocampus	82.3 nTPM
Amygdala	67.1 nTPM
Thalamus	61.9 nTPM
Medulla oblongata	49.1 nTPM
Hypothalamus	47.8 nTPM

Deep-layer corticothalamic and 6b	85.9 nTPM
Basal ganglia	116.8 nTPM
Midbrain	116.5 nTPM
Cerebral cortex	98.1 nTPM
Hippocampus	83.5 nTPM
Amygdala	69.7 nTPM
Hypothalamus	30.6 nTPM

Deep-layer intratelencephalic	73.0 nTPM
Basal ganglia	107.2 nTPM
Cerebral cortex	101.2 nTPM
Hippocampus	67.9 nTPM
Amygdala	65.2 nTPM
Hypothalamus	23.6 nTPM