Single cell type - SF3B2 - The Human Protein Atlas

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.	SF3B2
Gene descriptionⁱ Full gene name according to HGNC.	Splicing factor 3b subunit 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

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. Read more	Spermatocytes - Spermatogenesis (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. Read more	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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Low cell type specificity

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

SF3B2 is part of cluster 66 Spermatocytes - Spermatogenesis with confidenceⁱ 0.97
507 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
ERLEC1	Endoplasmic reticulum lectin 1	0.4901	55
OTUB1	OTU deubiquitinase, ubiquitin aldehyde binding 1	0.4887	53
DESI2	Desumoylating isopeptidase 2	0.4791	66
GNL2	G protein nucleolar 2	0.4740	10
PELP1	Proline, glutamate and leucine rich protein 1	0.4726	3
EWSR1	EWS RNA binding protein 1	0.4700	10
NOL7	Nucleolar protein 7	0.4594	39
RNF25	Ring finger protein 25	0.4568	66
VCP	Valosin containing protein	0.4269	18
SMG8	SMG8 nonsense mediated mRNA decay factor	0.4250	59
GGNBP2	Gametogenetin binding protein 2	0.4238	66
MORF4L1	Mortality factor 4 like 1	0.4225	66
DDX50	DExD-box helicase 50	0.4213	10
NUB1	Negative regulator of ubiquitin like proteins 1	0.4206	3
CCT7	Chaperonin containing TCP1 subunit 7	0.4188	39

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	86.5 nTPM
Adipose tissue	90.7 nTPM
Breast	82.3 nTPM

Alveolar cells type 1	128.2 nTPM
Lung	128.2 nTPM

Alveolar cells type 2	131.0 nTPM
Lung	131.0 nTPM

Astrocytes	18.6 nTPM
Brain	18.6 nTPM

B-cells	144.3 nTPM
Stomach	184.8 nTPM
Liver	183.5 nTPM
PBMC	152.7 nTPM
Lymph node	148.2 nTPM
Spleen	148.1 nTPM
Kidney	147.5 nTPM
Bone marrow	143.9 nTPM
Colon	143.8 nTPM
Adipose tissue	124.9 nTPM
Breast	65.6 nTPM

Basal squamous epithelial cells	129.1 nTPM
Esophagus	129.1 nTPM

Dendritic cells	131.8 nTPM
Adipose tissue	172.3 nTPM
PBMC	127.5 nTPM
Breast	95.5 nTPM

Endothelial cells	104.4 nTPM
Pancreas	146.7 nTPM
Prostate	134.9 nTPM
Esophagus	127.5 nTPM
Testis	119.4 nTPM
Placenta	115.4 nTPM
Ovary	110.5 nTPM
Skeletal muscle	106.8 nTPM
Skin	104.1 nTPM
Eye	97.9 nTPM
Breast	92.2 nTPM
Endometrium	83.3 nTPM
Liver	79.8 nTPM
Heart muscle	74.2 nTPM
Lung	68.6 nTPM

Erythroid cells	113.6 nTPM
Bone marrow	136.2 nTPM
Liver	90.9 nTPM

Fibroblasts	117.6 nTPM
Esophagus	153.6 nTPM
Prostate	145.2 nTPM
Placenta	141.1 nTPM
Lung	130.7 nTPM
Skin	127.7 nTPM
Adipose tissue	120.3 nTPM
Stomach	120.3 nTPM
Ovary	115.6 nTPM
Skeletal muscle	94.4 nTPM
Breast	83.9 nTPM
Heart muscle	60.6 nTPM

Intestinal goblet cells	112.4 nTPM
Colon	160.8 nTPM
Small intestine	94.3 nTPM
Rectum	82.0 nTPM

Macrophages	103.8 nTPM
Pancreas	171.0 nTPM
Lung	157.6 nTPM
Bone marrow	130.0 nTPM
Stomach	117.2 nTPM
Testis	112.7 nTPM
Adipose tissue	107.4 nTPM
Prostate	104.3 nTPM
Kidney	102.9 nTPM
Esophagus	102.2 nTPM
Spleen	101.6 nTPM
Endometrium	96.4 nTPM
Ovary	85.9 nTPM
Skeletal muscle	84.2 nTPM
Breast	70.7 nTPM
PBMC	13.6 nTPM

Paneth cells	96.3 nTPM
Rectum	102.3 nTPM
Small intestine	97.6 nTPM
Colon	88.9 nTPM

Plasma cells	198.3 nTPM
Spleen	264.0 nTPM
Bone marrow	245.6 nTPM
Stomach	216.1 nTPM
Esophagus	147.9 nTPM
Adipose tissue	118.1 nTPM

Respiratory ciliated cells	214.7 nTPM
Lung	215.7 nTPM
Bronchus	213.6 nTPM

Cholangiocytes	98.7 nTPM
Liver	98.7 nTPM

Collecting duct cells	66.2 nTPM
Kidney	66.2 nTPM

Cone photoreceptor cells	89.6 nTPM
Eye	89.6 nTPM

Cytotrophoblasts	195.9 nTPM
Placenta	195.9 nTPM

Smooth muscle cells	153.7 nTPM
Bronchus	469.2 nTPM
Pancreas	190.0 nTPM
Esophagus	144.2 nTPM
Prostate	141.0 nTPM
Ovary	126.9 nTPM
Skeletal muscle	124.7 nTPM
Skin	114.1 nTPM
Breast	99.7 nTPM
Endometrium	97.5 nTPM
Adipose tissue	95.6 nTPM
Heart muscle	87.5 nTPM

T-cells	145.5 nTPM
Stomach	210.0 nTPM
Bone marrow	175.8 nTPM
Colon	164.9 nTPM
Spleen	159.8 nTPM
Adipose tissue	157.6 nTPM
Lymph node	155.9 nTPM
PBMC	153.4 nTPM
Liver	153.1 nTPM
Lung	151.8 nTPM
Skeletal muscle	149.2 nTPM
Kidney	148.5 nTPM
Prostate	142.0 nTPM
Skin	136.7 nTPM
Endometrium	119.2 nTPM
Ovary	111.2 nTPM
Breast	98.6 nTPM
Esophagus	85.2 nTPM

Undifferentiated cells	122.3 nTPM
Colon	166.1 nTPM
Small intestine	106.3 nTPM
Rectum	94.4 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC