Single cell type - KDELR1 - The Human Protein Atlas

KDELR1

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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.	KDELR1
Gene descriptionⁱ Full gene name according to HGNC.	KDEL endoplasmic reticulum protein retention receptor 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Transporters
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.	Membrane
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.	Plasma cells - Protein processing (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 (Extravillous trophoblasts)
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.	0.31
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: Cell type enhanced (Extravillous trophoblasts)

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

KDELR1 is part of cluster 77 Plasma cells - Protein processing with confidenceⁱ 1
324 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.
YIPF3	Yip1 domain family member 3	0.6679	77
CHPF	Chondroitin polymerizing factor	0.6633	77
PDIA5	Protein disulfide isomerase family A member 5	0.6614	4
PDIA6	Protein disulfide isomerase family A member 6	0.6486	77
B4GALT7	Beta-1,4-galactosyltransferase 7	0.6448	77
TMEM214	Transmembrane protein 214	0.6435	77
LMAN1	Lectin, mannose binding 1	0.6417	77
SSR3	Signal sequence receptor subunit 3	0.6409	77
SLC39A7	Solute carrier family 39 member 7	0.6361	77
KDELR3	KDEL endoplasmic reticulum protein retention receptor 3	0.6046	50
CALR	Calreticulin	0.5989	77
PPIB	Peptidylprolyl isomerase B	0.5944	77
FUCA2	Alpha-L-fucosidase 2	0.5913	77
OSTC	Oligosaccharyltransferase complex non-catalytic subunit	0.5799	77
MYDGF	Myeloid derived growth factor	0.5797	77

IMMUNE CELLS

KDELR1 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.
ARHGAP31	Rho GTPase activating protein 31	1.0000	13
TBC1D10B	TBC1 domain family member 10B	1.0000	13
SLC35B1	Solute carrier family 35 member B1	1.0000	13
AHCY	Adenosylhomocysteinase	0.9762	13
NME2	NME/NM23 nucleoside diphosphate kinase 2	0.9762	13
PHB2	Prohibitin 2	0.9762	13
NCKIPSD	NCK interacting protein with SH3 domain	0.9762	13
MRPL24	Mitochondrial ribosomal protein L24	0.9762	13
HINT2	Histidine triad nucleotide binding protein 2	0.9762	13
TMEM39B	Transmembrane protein 39B	0.9762	13
SLC23A2	Solute carrier family 23 member 2	0.9762	13
UBE2K	Ubiquitin conjugating enzyme E2 K	0.9762	13
SPAG6	Sperm associated antigen 6	0.9762	13
AKR7A2	Aldo-keto reductase family 7 member A2	0.9762	13
TMEM104	Transmembrane protein 104	0.9524	13

Adipocytes	146.4 nTPM
Breast	155.7 nTPM
Adipose tissue	137.0 nTPM

Alveolar cells type 1	114.5 nTPM
Lung	114.5 nTPM

Alveolar cells type 2	191.8 nTPM
Lung	191.8 nTPM

Astrocytes	8.1 nTPM
Brain	8.1 nTPM

B-cells	61.6 nTPM
Adipose tissue	125.9 nTPM
Skin	91.5 nTPM
Thymus	81.3 nTPM
Kidney	67.6 nTPM
Lung	65.7 nTPM
Salivary gland	61.7 nTPM
Stomach	53.6 nTPM
Spleen	51.4 nTPM
Liver	48.3 nTPM
Esophagus	47.2 nTPM
Lymph node	47.0 nTPM
Bone marrow	42.8 nTPM
PBMC	16.9 nTPM

Basal squamous epithelial cells	117.0 nTPM
Esophagus	117.0 nTPM

Ciliated cells	74.6 nTPM
Fallopian tube	99.7 nTPM
Endometrium	80.8 nTPM
Lung	77.5 nTPM
Bronchus	40.3 nTPM

Club cells	158.1 nTPM
Prostate	191.2 nTPM
Lung	162.3 nTPM
Bronchus	120.7 nTPM

Dendritic cells	83.3 nTPM
Adipose tissue	98.2 nTPM
PBMC	68.4 nTPM

Endothelial cells	116.1 nTPM
Breast	180.1 nTPM
Fallopian tube	160.7 nTPM
Placenta	143.6 nTPM
Pancreas	137.0 nTPM
Thymus	133.5 nTPM
Lung	126.7 nTPM
Salivary gland	124.4 nTPM
Ovary	124.3 nTPM
Prostate	120.3 nTPM
Esophagus	118.3 nTPM
Endometrium	115.0 nTPM
Testis	107.7 nTPM
Vascular	106.6 nTPM
Liver	102.0 nTPM
Skin	92.5 nTPM
Tongue	91.2 nTPM
Skeletal muscle	85.3 nTPM
Heart muscle	20.7 nTPM

Enteroendocrine cells	162.0 nTPM
Colon	226.4 nTPM
Small intestine	133.9 nTPM
Rectum	125.8 nTPM

Fibroblasts	195.1 nTPM
Placenta	398.4 nTPM
Pancreas	307.6 nTPM
Adipose tissue	287.7 nTPM
Fallopian tube	245.1 nTPM
Thymus	225.8 nTPM
Vascular	206.2 nTPM
Salivary gland	204.7 nTPM
Breast	196.0 nTPM
Prostate	192.7 nTPM
Esophagus	189.4 nTPM
Lung	160.3 nTPM
Skin	148.5 nTPM
Stomach	142.7 nTPM
Skeletal muscle	132.9 nTPM
Liver	75.9 nTPM
Heart muscle	8.5 nTPM

Granulocytes	107.9 nTPM
Lung	133.1 nTPM
Fallopian tube	103.2 nTPM
Tongue	87.3 nTPM

Intestinal goblet cells	329.7 nTPM
Colon	484.0 nTPM
Rectum	261.9 nTPM
Small intestine	243.3 nTPM

Lymphatic endothelial cells	138.0 nTPM
Fallopian tube	183.3 nTPM
Ovary	92.7 nTPM

Bipolar cells	33.6 nTPM
Eye	33.6 nTPM

Cholangiocytes	95.4 nTPM
Liver	95.4 nTPM

Collecting duct cells	95.3 nTPM
Kidney	95.3 nTPM

Cone photoreceptor cells	35.7 nTPM
Eye	35.7 nTPM

Macrophages	105.6 nTPM
Pancreas	189.1 nTPM
Lung	156.6 nTPM
Prostate	139.1 nTPM
Adipose tissue	125.9 nTPM
Stomach	113.2 nTPM
Fallopian tube	109.8 nTPM
Thymus	108.9 nTPM
Breast	107.5 nTPM
Salivary gland	104.7 nTPM
Endometrium	103.3 nTPM
Vascular	98.3 nTPM
Tongue	95.0 nTPM
Esophagus	92.5 nTPM
Spleen	88.2 nTPM
Kidney	84.1 nTPM
Bone marrow	84.1 nTPM
Testis	77.5 nTPM
Skeletal muscle	73.3 nTPM
Skin	54.6 nTPM

Paneth cells	168.7 nTPM
Small intestine	186.5 nTPM
Rectum	160.5 nTPM
Colon	159.2 nTPM

Plasma cells	399.2 nTPM
Fallopian tube	594.4 nTPM
Stomach	516.8 nTPM
Esophagus	431.4 nTPM
Salivary gland	388.6 nTPM
Spleen	357.2 nTPM
Thymus	352.3 nTPM
Liver	293.4 nTPM
Bone marrow	259.7 nTPM

Schwann cells	72.0 nTPM
Adipose tissue	108.9 nTPM
Vascular	83.1 nTPM
Esophagus	24.0 nTPM

Serous glandular cells	190.6 nTPM
Salivary gland	235.4 nTPM
Tongue	145.8 nTPM

Smooth muscle cells	140.7 nTPM
Placenta	268.2 nTPM
Fallopian tube	198.4 nTPM
Ovary	168.1 nTPM
Endometrium	153.6 nTPM
Adipose tissue	146.3 nTPM
Breast	145.5 nTPM
Salivary gland	139.9 nTPM
Tongue	139.5 nTPM
Vascular	133.5 nTPM
Thymus	131.3 nTPM
Prostate	127.7 nTPM
Liver	126.1 nTPM
Lung	114.0 nTPM
Esophagus	104.5 nTPM
Skeletal muscle	80.9 nTPM
Skin	72.9 nTPM

Suprabasal keratinocytes	127.2 nTPM
Tongue	185.5 nTPM
Skin	68.9 nTPM

T-cells	57.6 nTPM
Prostate	83.8 nTPM
Lung	73.3 nTPM
Thymus	71.8 nTPM
Colon	71.2 nTPM
Stomach	66.2 nTPM
Endometrium	62.9 nTPM
Fallopian tube	61.6 nTPM
Breast	60.2 nTPM
Vascular	59.5 nTPM
Spleen	56.6 nTPM
Adipose tissue	56.0 nTPM
Tongue	55.8 nTPM
Bone marrow	54.6 nTPM
Salivary gland	53.7 nTPM
Lymph node	52.3 nTPM
PBMC	51.1 nTPM
Liver	48.6 nTPM
Kidney	47.0 nTPM
Skeletal muscle	43.9 nTPM
Skin	42.1 nTPM
Esophagus	36.5 nTPM

Undifferentiated cells	186.6 nTPM
Colon	207.8 nTPM
Small intestine	202.1 nTPM
Rectum	150.0 nTPM

Amygdala excitatory	14.3 nTPM
Basal ganglia	17.1 nTPM
Thalamus	15.4 nTPM
Hippocampus	14.5 nTPM
Cerebral cortex	13.2 nTPM
Hypothalamus	13.0 nTPM
Amygdala	12.7 nTPM

Astrocyte	18.2 nTPM
Cerebral cortex	23.9 nTPM
Hippocampus	21.2 nTPM
Midbrain	20.1 nTPM
Pons	19.6 nTPM
Thalamus	18.6 nTPM
Medulla oblongata	18.2 nTPM
Cerebellum	17.7 nTPM
Amygdala	16.8 nTPM
Basal ganglia	16.8 nTPM
Spinal cord	14.7 nTPM
Hypothalamus	12.4 nTPM

Bergmann glia	20.5 nTPM
Cerebellum	23.1 nTPM
Medulla oblongata	21.3 nTPM
Pons	17.3 nTPM

Central nervous system macrophage	23.8 nTPM
Midbrain	27.7 nTPM
Basal ganglia	27.2 nTPM
Pons	25.3 nTPM
Cerebral cortex	24.6 nTPM
Hippocampus	24.5 nTPM
Thalamus	24.4 nTPM
Spinal cord	24.1 nTPM
Cerebellum	23.1 nTPM
Medulla oblongata	22.2 nTPM
Amygdala	21.1 nTPM
Hypothalamus	17.5 nTPM

Cerebellar inhibitory	25.6 nTPM
Midbrain	37.3 nTPM
Pons	33.5 nTPM
Cerebellum	26.5 nTPM
Medulla oblongata	25.0 nTPM
Spinal cord	5.5 nTPM

Cge interneuron	33.6 nTPM
Midbrain	37.1 nTPM
Basal ganglia	36.9 nTPM
Thalamus	36.6 nTPM
Hippocampus	35.6 nTPM
Cerebral cortex	35.1 nTPM
Amygdala	30.1 nTPM
Hypothalamus	24.1 nTPM

Choroid plexus epithelial cell	16.9 nTPM
Hippocampus	22.2 nTPM
Medulla oblongata	16.9 nTPM
Basal ganglia	14.8 nTPM
Thalamus	13.7 nTPM

Committed oligodendrocyte precursor	24.6 nTPM
Midbrain	40.3 nTPM
Pons	33.6 nTPM
Hippocampus	26.6 nTPM
Thalamus	24.5 nTPM
Cerebral cortex	24.1 nTPM
Cerebellum	23.8 nTPM
Medulla oblongata	23.2 nTPM
Amygdala	20.3 nTPM
Basal ganglia	20.3 nTPM
Spinal cord	18.4 nTPM
Hypothalamus	15.0 nTPM

Deep-layer corticothalamic and 6b	20.3 nTPM
Midbrain	28.8 nTPM
Basal ganglia	21.3 nTPM
Hippocampus	19.3 nTPM
Cerebral cortex	18.5 nTPM
Amygdala	17.8 nTPM
Hypothalamus	16.2 nTPM

Deep-layer intratelencephalic	16.3 nTPM
Hippocampus	19.3 nTPM
Cerebral cortex	18.1 nTPM
Basal ganglia	17.5 nTPM
Amygdala	13.8 nTPM
Hypothalamus	12.9 nTPM

Deep-layer near-projecting	24.2 nTPM
Hippocampus	29.6 nTPM
Basal ganglia	28.6 nTPM
Cerebral cortex	22.6 nTPM
Hypothalamus	21.0 nTPM
Amygdala	19.3 nTPM