Single cell type - POLR2J3 - 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.	POLR2J3
Gene descriptionⁱ Full gene name according to HGNC.	RNA polymerase II subunit J3
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	RNA polymerase related 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.	3

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.	Cell type enhanced (Rod photoreceptor cells)
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.	0.34
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.	Not detected
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 type

Single nuclei - Brain

Immune cells

Expression clustering

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: Cell type enhanced (Rod photoreceptor cells)

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Not detected

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ

HPA datasetⁱ

Lineage

Expression

Alphabetical

Immune cell type specificity: Low immune cell specificity

Monaco datasetⁱ

Lineage

Expression

Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

POLR2J3 is part of cluster 55 Non-specific - Transcription with confidenceⁱ 1
709 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.
ZNF224	Zinc finger protein 224	0.7350	55
ZFP14	ZFP14 zinc finger protein	0.7010	55
OR3A3	Olfactory receptor family 3 subfamily A member 3	0.6716	55
SLC25A45	Solute carrier family 25 member 45	0.6635	55
ZNF75A	Zinc finger protein 75a	0.6591	55
OR2A25	Olfactory receptor family 2 subfamily A member 25	0.6565	19
TTC14	Tetratricopeptide repeat domain 14	0.6484	55
N4BP2L2	NEDD4 binding protein 2 like 2	0.6473	55
OR4D9	Olfactory receptor family 4 subfamily D member 9	0.6464	19
PNISR	PNN interacting serine and arginine rich protein	0.6448	55
PILRB	Paired immunoglobin like type 2 receptor beta	0.6401	19
C19orf25	Chromosome 19 open reading frame 25	0.6357	55
TBCE	Tubulin folding cofactor E	0.6316	55
B3GAT2	Beta-1,3-glucuronyltransferase 2	0.6282	71
ZNF701	Zinc finger protein 701	0.6274	55

IMMUNE CELLS

POLR2J3 is part of cluster 29 Non-specific - Unknown function with confidenceⁱ 0.59
401 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.
ANAPC15	Anaphase promoting complex subunit 15	0.9762	29
FASTK	Fas activated serine/threonine kinase	0.9762	29
CCDC124	Coiled-coil domain containing 124	0.9524	29
MRPS23	Mitochondrial ribosomal protein S23	0.9524	12
SPAG7	Sperm associated antigen 7	0.9524	29
NDUFS6	NADH:ubiquinone oxidoreductase subunit S6	0.9524	12
VPS33B	VPS33B late endosome and lysosome associated	0.9286	29
CHRFAM7A	CHRNA7 (exons 5-10) and FAM7A (exons A-E) fusion	0.9286	29
SCO1	Synthesis of cytochrome C oxidase 1	0.9286	29
NDUFB2	NADH:ubiquinone oxidoreductase subunit B2	0.9286	29
SRRT	Serrate, RNA effector molecule	0.9286	3
JOSD2	Josephin domain containing 2	0.9048	29
EMC6	ER membrane protein complex subunit 6	0.9048	12
VKORC1	Vitamin K epoxide reductase complex subunit 1	0.9048	29
NUDT16L1	Nudix hydrolase 16 like 1	0.9048	3