Single cell type - PNMA6A - The Human Protein Atlas

PNMA6A

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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.	PNMA6A
Gene descriptionⁱ Full gene name according to HGNC.	PNMA family member 6A
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.	1

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.	Horizontal & Bipolar cells - Neuronal signaling (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 (Horizontal cells, Bipolar cells, Proximal tubular cells, Muller glia 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.	0.82
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.	Immune cell enriched (eosinophil)
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 (Horizontal cells, Bipolar cells, Proximal tubular cells, Muller glia cells)

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: Immune cell enriched (eosinophil)
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

PNMA6A is part of cluster 71 Horizontal & Bipolar cells - Neuronal signaling with confidenceⁱ 1
205 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.
NRXN2	Neurexin 2	0.7325	71
TAGLN3	Transgelin 3	0.7029	71
JPH4	Junctophilin 4	0.6876	71
KIF1A	Kinesin family member 1A	0.6654	71
TMEM240	Transmembrane protein 240	0.6640	71
BHLHE22	Basic helix-loop-helix family member e22	0.6397	71
PCDHB9	Protocadherin beta 9	0.6384	71
SCRT2	Scratch family transcriptional repressor 2	0.6351	71
DRD1	Dopamine receptor D1	0.6334	71
NAT16	N-acetyltransferase 16 (putative)	0.6324	71
PLEKHD1	Pleckstrin homology and coiled-coil domain containing D1	0.6229	71
C1QL1	Complement C1q like 1	0.6172	71
CACNA1G	Calcium voltage-gated channel subunit alpha1 G	0.6167	71
MAPK8IP2	Mitogen-activated protein kinase 8 interacting protein 2	0.6144	71
SV2A	Synaptic vesicle glycoprotein 2A	0.6091	71

Adipocytes	0.1 nTPM
Breast	0.2 nTPM
Adipose tissue	0.0 nTPM

Alveolar cells type 1	0.2 nTPM
Lung	0.2 nTPM

Alveolar cells type 2	1.3 nTPM
Lung	1.3 nTPM

Astrocytes	4.3 nTPM
Brain	4.3 nTPM

B-cells	0.2 nTPM
Skin	1.7 nTPM
Adipose tissue	0.4 nTPM
Thymus	0.3 nTPM
Salivary gland	0.2 nTPM
Lymph node	0.1 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	1.0 nTPM
Fallopian tube	2.5 nTPM
Bronchus	0.7 nTPM
Endometrium	0.5 nTPM
Lung	0.4 nTPM

Club cells	0.5 nTPM
Bronchus	1.0 nTPM
Lung	0.4 nTPM
Prostate	0.1 nTPM

Endothelial cells	0.1 nTPM
Ovary	0.8 nTPM
Skin	0.4 nTPM
Endometrium	0.2 nTPM
Salivary gland	0.2 nTPM
Lung	0.1 nTPM
Thymus	0.1 nTPM
Vascular	0.1 nTPM
Fallopian tube	0.1 nTPM
Testis	0.0 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM
Tongue	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	0.0 nTPM
Colon	0.1 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	2.1 nTPM
Skin	3.5 nTPM
Heart muscle	3.2 nTPM
Fallopian tube	3.2 nTPM
Pancreas	3.0 nTPM
Stomach	2.9 nTPM
Adipose tissue	2.7 nTPM
Skeletal muscle	2.5 nTPM
Prostate	2.0 nTPM
Esophagus	1.9 nTPM
Salivary gland	1.5 nTPM
Thymus	1.5 nTPM
Placenta	1.4 nTPM
Breast	1.3 nTPM
Liver	1.2 nTPM
Lung	1.2 nTPM
Vascular	0.9 nTPM

Granulocytes	2.6 nTPM
Tongue	4.9 nTPM
Fallopian tube	2.5 nTPM
Lung	0.5 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Lymphatic endothelial cells	0.2 nTPM
Fallopian tube	0.5 nTPM
Ovary	0.0 nTPM

Macrophages	0.7 nTPM
Vascular	2.2 nTPM
Bone marrow	2.0 nTPM
Kidney	1.8 nTPM
Esophagus	1.3 nTPM
Skin	1.1 nTPM
Spleen	1.0 nTPM
Adipose tissue	0.8 nTPM
Thymus	0.8 nTPM
Skeletal muscle	0.5 nTPM
Breast	0.5 nTPM
Fallopian tube	0.4 nTPM
Lung	0.3 nTPM
Salivary gland	0.3 nTPM
Tongue	0.3 nTPM
Testis	0.0 nTPM
Endometrium	0.0 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM
Prostate	0.0 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Endometrial stromal cells	3.4 nTPM
Endometrium	3.4 nTPM

Excitatory neurons	7.9 nTPM
Brain	7.9 nTPM

Plasma cells	1.8 nTPM
Fallopian tube	5.8 nTPM
Liver	3.5 nTPM
Salivary gland	1.8 nTPM
Bone marrow	1.5 nTPM
Thymus	0.9 nTPM
Spleen	0.7 nTPM
Stomach	0.4 nTPM
Esophagus	0.0 nTPM

Schwann cells	0.8 nTPM
Vascular	1.6 nTPM
Adipose tissue	0.8 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	0.1 nTPM
Salivary gland	0.3 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	2.3 nTPM
Skin	6.6 nTPM
Lung	5.9 nTPM
Fallopian tube	5.5 nTPM
Breast	2.7 nTPM
Placenta	2.2 nTPM
Endometrium	2.0 nTPM
Adipose tissue	1.6 nTPM
Ovary	1.6 nTPM
Tongue	1.5 nTPM
Thymus	1.4 nTPM
Esophagus	1.2 nTPM
Vascular	1.0 nTPM
Skeletal muscle	0.9 nTPM
Salivary gland	0.9 nTPM
Liver	0.8 nTPM
Prostate	0.6 nTPM

T-cells	0.4 nTPM
Kidney	4.4 nTPM
Thymus	1.2 nTPM
Salivary gland	0.6 nTPM
Tongue	0.6 nTPM
Lymph node	0.5 nTPM
Endometrium	0.4 nTPM
Skin	0.4 nTPM
Lung	0.3 nTPM
Adipose tissue	0.2 nTPM
Breast	0.2 nTPM
Stomach	0.1 nTPM
Fallopian tube	0.1 nTPM
Colon	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Prostate	0.0 nTPM
Vascular	0.0 nTPM

Undifferentiated cells	0.0 nTPM
Small intestine	0.1 nTPM
Colon	0.0 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	11.1 nTPM
Thalamus	20.0 nTPM
Basal ganglia	13.2 nTPM
Hippocampus	8.9 nTPM
Hypothalamus	8.7 nTPM
Cerebral cortex	8.4 nTPM
Amygdala	7.5 nTPM

Astrocyte	4.1 nTPM
Cerebral cortex	6.4 nTPM
Hippocampus	6.1 nTPM
Pons	5.0 nTPM
Thalamus	4.8 nTPM
Basal ganglia	4.6 nTPM
Midbrain	4.0 nTPM
Hypothalamus	3.2 nTPM
Cerebellum	3.1 nTPM
Medulla oblongata	3.1 nTPM
Amygdala	3.0 nTPM
Spinal cord	2.3 nTPM

Bergmann glia	5.7 nTPM
Pons	8.6 nTPM
Cerebellum	6.5 nTPM
Medulla oblongata	2.1 nTPM

Central nervous system macrophage	1.3 nTPM
Thalamus	2.6 nTPM
Cerebral cortex	2.4 nTPM
Hypothalamus	2.0 nTPM
Hippocampus	1.5 nTPM
Medulla oblongata	1.2 nTPM
Spinal cord	1.2 nTPM
Cerebellum	1.1 nTPM
Midbrain	0.7 nTPM
Pons	0.6 nTPM
Basal ganglia	0.5 nTPM
Amygdala	0.4 nTPM

Cerebellar inhibitory	18.3 nTPM
Pons	22.8 nTPM
Midbrain	22.7 nTPM
Cerebellum	16.2 nTPM
Medulla oblongata	16.2 nTPM
Spinal cord	13.7 nTPM

Cge interneuron	23.4 nTPM
Thalamus	31.2 nTPM
Midbrain	26.7 nTPM
Cerebral cortex	23.8 nTPM
Basal ganglia	23.0 nTPM
Hippocampus	20.6 nTPM
Hypothalamus	20.2 nTPM
Amygdala	18.1 nTPM

Choroid plexus epithelial cell	2.2 nTPM
Hippocampus	2.8 nTPM
Thalamus	2.7 nTPM
Medulla oblongata	2.2 nTPM
Basal ganglia	1.1 nTPM

Committed oligodendrocyte precursor	6.1 nTPM
Pons	12.4 nTPM
Cerebral cortex	10.1 nTPM
Hippocampus	7.8 nTPM
Medulla oblongata	7.7 nTPM
Midbrain	6.7 nTPM
Thalamus	6.1 nTPM
Cerebellum	4.8 nTPM
Basal ganglia	3.8 nTPM
Spinal cord	3.7 nTPM
Amygdala	2.3 nTPM
Hypothalamus	2.0 nTPM

Deep-layer corticothalamic and 6b	10.1 nTPM
Basal ganglia	11.9 nTPM
Hypothalamus	11.8 nTPM
Cerebral cortex	10.5 nTPM
Hippocampus	9.9 nTPM
Midbrain	8.9 nTPM
Amygdala	7.4 nTPM

Deep-layer intratelencephalic	12.4 nTPM
Hypothalamus	16.2 nTPM
Cerebral cortex	14.3 nTPM
Basal ganglia	14.0 nTPM
Hippocampus	9.4 nTPM
Amygdala	8.3 nTPM

Deep-layer near-projecting	14.6 nTPM
Basal ganglia	17.7 nTPM
Hypothalamus	16.7 nTPM
Cerebral cortex	15.2 nTPM
Hippocampus	12.0 nTPM
Amygdala	11.1 nTPM

Eccentric medium spiny neuron	9.8 nTPM
Cerebral cortex	11.0 nTPM
Hippocampus	10.4 nTPM
Hypothalamus	10.2 nTPM
Thalamus	10.2 nTPM
Amygdala	8.8 nTPM
Basal ganglia	8.4 nTPM

Endothelial cell	1.1 nTPM
Thalamus	3.4 nTPM
Hypothalamus	2.5 nTPM
Basal ganglia	1.9 nTPM
Cerebral cortex	1.3 nTPM
Amygdala	1.1 nTPM
Hippocampus	1.0 nTPM
Cerebellum	0.8 nTPM
Pons	0.6 nTPM
Medulla oblongata	0.0 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM

Ependymal cell	6.0 nTPM
Spinal cord	9.6 nTPM
Midbrain	9.5 nTPM
Hypothalamus	7.1 nTPM
Hippocampus	6.6 nTPM
Thalamus	6.1 nTPM
Basal ganglia	4.4 nTPM
Medulla oblongata	4.4 nTPM
Amygdala	3.4 nTPM
Pons	3.1 nTPM