Single cell type - TRAPPC3 - 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.	TRAPPC3
Gene descriptionⁱ Full gene name according to HGNC.	Trafficking protein particle complex 3
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	Non-specific - Unknown function (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

TRAPPC3 is part of cluster 10 Non-specific - Unknown function with confidenceⁱ 1
482 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
TMEM126A	Transmembrane protein 126A	0.5135	39
UBE2J2	Ubiquitin conjugating enzyme E2 J2	0.5049	66
YWHAQ	Tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein theta	0.5046	10
RNF114	Ring finger protein 114	0.4798	66
MIEN1	Migration and invasion enhancer 1	0.4784	16
MRPL36	Mitochondrial ribosomal protein L36	0.4769	39
MED21	Mediator complex subunit 21	0.4694	22
NACA2	Nascent polypeptide associated complex subunit alpha 2	0.4691	10
NT5C3B	5'-nucleotidase, cytosolic IIIB	0.4676	39
REEP3	Receptor accessory protein 3	0.4634	22
MRPL14	Mitochondrial ribosomal protein L14	0.4615	10
KXD1	KxDL motif containing 1	0.4598	29
EMC6	ER membrane protein complex subunit 6	0.4587	10
PSMC1	Proteasome 26S subunit, ATPase 1	0.4542	10
UCHL3	Ubiquitin C-terminal hydrolase L3	0.4541	10

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	41.9 nTPM
Breast	48.2 nTPM
Adipose tissue	35.6 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	27.6 nTPM
Lung	27.6 nTPM

Astrocytes	12.1 nTPM
Brain	12.1 nTPM

B-cells	45.6 nTPM
Liver	111.0 nTPM
Breast	61.5 nTPM
Colon	41.5 nTPM
Spleen	39.1 nTPM
PBMC	37.1 nTPM
Bone marrow	35.1 nTPM
Lymph node	35.0 nTPM
Kidney	33.4 nTPM
Adipose tissue	31.5 nTPM
Stomach	31.4 nTPM

Dendritic cells	43.0 nTPM
Breast	56.9 nTPM
Adipose tissue	36.1 nTPM
PBMC	35.8 nTPM

Endothelial cells	59.1 nTPM
Prostate	106.2 nTPM
Pancreas	96.5 nTPM
Skin	87.7 nTPM
Placenta	74.4 nTPM
Breast	73.7 nTPM
Testis	73.1 nTPM
Ovary	52.8 nTPM
Esophagus	51.7 nTPM
Liver	46.7 nTPM
Skeletal muscle	40.8 nTPM
Endometrium	40.0 nTPM
Eye	36.4 nTPM
Heart muscle	34.9 nTPM
Lung	12.5 nTPM

Fibroblasts	52.1 nTPM
Prostate	81.5 nTPM
Placenta	74.9 nTPM
Skin	69.7 nTPM
Breast	56.7 nTPM
Esophagus	55.5 nTPM
Ovary	49.0 nTPM
Adipose tissue	48.9 nTPM
Skeletal muscle	41.5 nTPM
Stomach	35.6 nTPM
Heart muscle	33.3 nTPM
Lung	26.8 nTPM

Intestinal goblet cells	51.2 nTPM
Small intestine	55.3 nTPM
Colon	52.9 nTPM
Rectum	45.5 nTPM

Macrophages	60.6 nTPM
Pancreas	120.0 nTPM
Prostate	94.0 nTPM
Kidney	86.2 nTPM
Ovary	83.5 nTPM
Testis	69.8 nTPM
Breast	67.8 nTPM
Bone marrow	53.7 nTPM
Spleen	51.8 nTPM
Stomach	49.8 nTPM
Endometrium	48.9 nTPM
Adipose tissue	44.0 nTPM
Skeletal muscle	42.5 nTPM
Lung	39.0 nTPM
Esophagus	31.5 nTPM
PBMC	27.3 nTPM

Paneth cells	72.1 nTPM
Small intestine	86.3 nTPM
Colon	75.8 nTPM
Rectum	54.3 nTPM

Plasma cells	80.7 nTPM
Spleen	119.3 nTPM
Stomach	89.9 nTPM
Esophagus	86.2 nTPM
Bone marrow	72.5 nTPM
Adipose tissue	35.5 nTPM

Respiratory ciliated cells	49.2 nTPM
Bronchus	73.6 nTPM
Lung	24.8 nTPM

Smooth muscle cells	69.2 nTPM
Bronchus	174.5 nTPM
Pancreas	141.7 nTPM
Prostate	76.6 nTPM
Skin	60.3 nTPM
Esophagus	54.3 nTPM
Breast	54.1 nTPM
Ovary	48.3 nTPM
Skeletal muscle	46.5 nTPM
Adipose tissue	37.1 nTPM
Heart muscle	36.9 nTPM
Endometrium	30.7 nTPM

T-cells	50.4 nTPM
Ovary	82.3 nTPM
Skin	63.0 nTPM
Kidney	62.3 nTPM
Liver	56.6 nTPM
Breast	55.2 nTPM
Esophagus	52.4 nTPM
Prostate	52.1 nTPM
PBMC	49.8 nTPM
Spleen	49.0 nTPM
Lymph node	48.6 nTPM
Adipose tissue	44.1 nTPM
Colon	43.2 nTPM
Stomach	43.1 nTPM
Bone marrow	40.4 nTPM
Lung	39.5 nTPM
Skeletal muscle	39.1 nTPM
Endometrium	36.3 nTPM

Basal keratinocytes	101.1 nTPM
Skin	101.1 nTPM

Basal prostatic cells	111.5 nTPM
Prostate	111.5 nTPM

Basal respiratory cells	152.1 nTPM
Bronchus	152.1 nTPM

Basal squamous epithelial cells	52.3 nTPM
Esophagus	52.3 nTPM

Undifferentiated cells	54.3 nTPM
Colon	55.7 nTPM
Small intestine	55.4 nTPM
Rectum	51.7 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