Single cell type - INTS6L - The Human Protein Atlas

INTS6L

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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.	INTS6L
Gene descriptionⁱ Full gene name according to HGNC.	Integrator complex subunit 6 like
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.	2

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 (Oligodendrocyte precursor cells, Excitatory neurons)
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.	0.51
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 (Oligodendrocyte precursor cells, Excitatory neurons)

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

INTS6L is part of cluster 80 Non-specific - Transcription with confidenceⁱ 1
184 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.
BRD2	Bromodomain containing 2	0.5695	80
ZNF10	Zinc finger protein 10	0.5593	49
RSRP1	Arginine and serine rich protein 1	0.5485	80
ENSG00000268643	Novel protein	0.5219	80
CHD2	Chromodomain helicase DNA binding protein 2	0.5217	80
FAM13B	Family with sequence similarity 13 member B	0.5023	49
METTL15	Methyltransferase like 15	0.4997	80
OR2AE1	Olfactory receptor family 2 subfamily AE member 1	0.4913	80
H2AX	H2A.X variant histone	0.4853	80
ZNF296	Zinc finger protein 296	0.4725	73
FUS	FUS RNA binding protein	0.4692	80
NBPF11	NBPF member 11	0.4679	55
NEDD8-MDP1	NEDD8-MDP1 readthrough	0.4653	49
NR4A2	Nuclear receptor subfamily 4 group A member 2	0.4631	80
PPP1R10	Protein phosphatase 1 regulatory subunit 10	0.4541	80

IMMUNE CELLS

INTS6L is part of cluster 43 Non-specific - Transcription & Translation with confidenceⁱ 0.93
433 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.
HSP90AB1	Heat shock protein 90 alpha family class B member 1	1.0000	43
RPL10A	Ribosomal protein L10a	1.0000	43
RPL22	Ribosomal protein L22	1.0000	43
ZBTB26	Zinc finger and BTB domain containing 26	0.9762	43
KAT14	Lysine acetyltransferase 14	0.9524	24
UBQLN4	Ubiquilin 4	0.9524	43
RPL14	Ribosomal protein L14	0.9524	43
DARS1	Aspartyl-tRNA synthetase 1	0.9286	43
TIA1	TIA1 cytotoxic granule associated RNA binding protein	0.9286	18
KAT2A	Lysine acetyltransferase 2A	0.9286	43
LIAS	Lipoic acid synthetase	0.9286	24
ZNF780B	Zinc finger protein 780B	0.9286	43
GFOD2	Glucose-fructose oxidoreductase domain containing 2	0.9286	43
USP21	Ubiquitin specific peptidase 21	0.9286	43
EIF2D	Eukaryotic translation initiation factor 2D	0.9286	18

Adipocytes	5.8 nTPM
Breast	6.7 nTPM
Adipose tissue	4.9 nTPM

Alveolar cells type 1	2.3 nTPM
Lung	2.3 nTPM

Alveolar cells type 2	3.3 nTPM
Lung	3.3 nTPM

Astrocytes	24.2 nTPM
Brain	24.2 nTPM

B-cells	19.3 nTPM
Lymph node	47.6 nTPM
Esophagus	29.5 nTPM
Thymus	21.6 nTPM
Stomach	20.7 nTPM
Adipose tissue	19.8 nTPM
Spleen	18.9 nTPM
Bone marrow	16.4 nTPM
Kidney	15.6 nTPM
Salivary gland	15.6 nTPM
Liver	14.5 nTPM
PBMC	13.9 nTPM
Lung	9.4 nTPM
Skin	6.8 nTPM

Ciliated cells	9.9 nTPM
Endometrium	14.3 nTPM
Bronchus	11.9 nTPM
Fallopian tube	8.5 nTPM
Lung	5.1 nTPM

Club cells	4.8 nTPM
Prostate	8.1 nTPM
Bronchus	3.8 nTPM
Lung	2.6 nTPM

Dendritic cells	24.0 nTPM
Adipose tissue	30.0 nTPM
PBMC	18.0 nTPM

Endothelial cells	5.8 nTPM
Endometrium	13.2 nTPM
Skin	10.4 nTPM
Esophagus	9.5 nTPM
Prostate	7.9 nTPM
Tongue	7.4 nTPM
Skeletal muscle	6.5 nTPM
Salivary gland	6.1 nTPM
Placenta	5.7 nTPM
Thymus	5.5 nTPM
Pancreas	5.2 nTPM
Heart muscle	4.8 nTPM
Fallopian tube	4.7 nTPM
Vascular	4.1 nTPM
Ovary	3.8 nTPM
Testis	3.7 nTPM
Liver	2.5 nTPM
Lung	2.3 nTPM
Breast	1.8 nTPM

Enteroendocrine cells	6.5 nTPM
Colon	12.9 nTPM
Rectum	6.7 nTPM
Small intestine	0.0 nTPM

Fibroblasts	4.5 nTPM
Esophagus	13.5 nTPM
Skin	6.3 nTPM
Stomach	5.8 nTPM
Breast	5.2 nTPM
Liver	4.7 nTPM
Heart muscle	4.3 nTPM
Placenta	4.3 nTPM
Thymus	4.1 nTPM
Prostate	4.0 nTPM
Salivary gland	3.9 nTPM
Skeletal muscle	3.6 nTPM
Fallopian tube	3.4 nTPM
Vascular	2.9 nTPM
Adipose tissue	2.1 nTPM
Pancreas	1.9 nTPM
Lung	1.2 nTPM

Granulocytes	24.5 nTPM
Fallopian tube	26.1 nTPM
Tongue	24.3 nTPM
Lung	23.2 nTPM

Intestinal goblet cells	8.0 nTPM
Colon	8.9 nTPM
Rectum	7.9 nTPM
Small intestine	7.2 nTPM

Lymphatic endothelial cells	0.4 nTPM
Fallopian tube	0.9 nTPM
Ovary	0.0 nTPM

Macrophages	9.9 nTPM
Esophagus	25.7 nTPM
Breast	17.5 nTPM
Skin	15.6 nTPM
Adipose tissue	15.1 nTPM
Spleen	15.0 nTPM
Endometrium	11.7 nTPM
Skeletal muscle	11.7 nTPM
Tongue	11.0 nTPM
Salivary gland	10.6 nTPM
Fallopian tube	10.3 nTPM
Stomach	7.7 nTPM
Bone marrow	7.1 nTPM
Vascular	6.7 nTPM
Thymus	5.6 nTPM
Prostate	5.0 nTPM
Testis	4.3 nTPM
Kidney	3.5 nTPM
Lung	3.2 nTPM
Pancreas	0.0 nTPM

Basal keratinocytes	11.2 nTPM
Skin	13.8 nTPM
Tongue	8.7 nTPM

Basal squamous epithelial cells	25.0 nTPM
Esophagus	25.0 nTPM

Bipolar cells	3.0 nTPM
Eye	3.0 nTPM

Cone photoreceptor cells	1.7 nTPM
Eye	1.7 nTPM

Paneth cells	8.9 nTPM
Small intestine	10.4 nTPM
Rectum	9.2 nTPM
Colon	7.2 nTPM

Plasma cells	6.3 nTPM
Salivary gland	13.0 nTPM
Thymus	8.2 nTPM
Fallopian tube	7.4 nTPM
Bone marrow	6.0 nTPM
Liver	5.5 nTPM
Stomach	5.4 nTPM
Spleen	4.8 nTPM
Esophagus	0.0 nTPM

Schwann cells	6.3 nTPM
Adipose tissue	15.2 nTPM
Vascular	3.7 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	12.3 nTPM
Salivary gland	15.9 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	7.8 nTPM
Esophagus	22.8 nTPM
Salivary gland	12.2 nTPM
Skeletal muscle	10.1 nTPM
Skin	8.4 nTPM
Tongue	8.1 nTPM
Thymus	7.9 nTPM
Breast	7.7 nTPM
Liver	7.6 nTPM
Adipose tissue	7.3 nTPM
Endometrium	7.2 nTPM
Prostate	6.7 nTPM
Ovary	4.7 nTPM
Fallopian tube	4.2 nTPM
Vascular	3.7 nTPM
Lung	3.5 nTPM
Placenta	2.0 nTPM

T-cells	18.6 nTPM
Esophagus	48.7 nTPM
Lymph node	38.6 nTPM
Breast	35.9 nTPM
Thymus	23.2 nTPM
Endometrium	21.9 nTPM
Adipose tissue	21.1 nTPM
Skeletal muscle	20.0 nTPM
Vascular	18.5 nTPM
Skin	17.9 nTPM
Spleen	17.7 nTPM
Tongue	16.3 nTPM
Prostate	15.1 nTPM
Fallopian tube	13.0 nTPM
Salivary gland	12.6 nTPM
Stomach	12.2 nTPM
Bone marrow	11.6 nTPM
PBMC	10.1 nTPM
Colon	9.7 nTPM
Kidney	8.9 nTPM
Liver	8.9 nTPM
Lung	8.7 nTPM

Undifferentiated cells	4.6 nTPM
Rectum	6.7 nTPM
Colon	4.6 nTPM
Small intestine	2.6 nTPM

Amygdala excitatory	53.2 nTPM
Amygdala	84.8 nTPM
Hypothalamus	55.0 nTPM
Cerebral cortex	50.8 nTPM
Thalamus	50.4 nTPM
Basal ganglia	45.9 nTPM
Hippocampus	32.2 nTPM

Astrocyte	46.6 nTPM
Amygdala	60.2 nTPM
Hypothalamus	53.2 nTPM
Cerebral cortex	51.1 nTPM
Basal ganglia	48.7 nTPM
Medulla oblongata	48.6 nTPM
Spinal cord	46.7 nTPM
Pons	45.8 nTPM
Hippocampus	45.6 nTPM
Thalamus	41.8 nTPM
Midbrain	41.1 nTPM
Cerebellum	29.2 nTPM

Bergmann glia	35.8 nTPM
Cerebellum	39.5 nTPM
Pons	36.0 nTPM
Medulla oblongata	32.0 nTPM

Central nervous system macrophage	89.2 nTPM
Amygdala	122.2 nTPM
Hippocampus	102.6 nTPM
Hypothalamus	99.4 nTPM
Basal ganglia	91.0 nTPM
Midbrain	90.5 nTPM
Pons	88.5 nTPM
Thalamus	87.7 nTPM
Cerebellum	83.7 nTPM
Cerebral cortex	79.0 nTPM
Medulla oblongata	71.7 nTPM
Spinal cord	64.8 nTPM

Cerebellar inhibitory	32.2 nTPM
Midbrain	34.5 nTPM
Pons	34.5 nTPM
Spinal cord	33.0 nTPM
Medulla oblongata	32.6 nTPM
Cerebellum	26.6 nTPM

Cge interneuron	34.9 nTPM
Amygdala	41.1 nTPM
Hypothalamus	41.0 nTPM
Basal ganglia	38.4 nTPM
Cerebral cortex	32.7 nTPM
Midbrain	32.2 nTPM
Hippocampus	29.4 nTPM
Thalamus	29.3 nTPM

Choroid plexus epithelial cell	31.0 nTPM
Basal ganglia	36.2 nTPM
Hippocampus	33.3 nTPM
Thalamus	30.1 nTPM
Medulla oblongata	24.4 nTPM

Committed oligodendrocyte precursor	47.2 nTPM
Midbrain	62.2 nTPM
Spinal cord	55.2 nTPM
Amygdala	53.6 nTPM
Hippocampus	52.5 nTPM
Basal ganglia	51.5 nTPM
Hypothalamus	51.2 nTPM
Cerebral cortex	49.4 nTPM
Cerebellum	42.8 nTPM
Pons	39.0 nTPM
Medulla oblongata	32.3 nTPM
Thalamus	29.3 nTPM

Deep-layer corticothalamic and 6b	18.4 nTPM
Midbrain	21.1 nTPM
Hippocampus	19.8 nTPM
Basal ganglia	18.6 nTPM
Hypothalamus	18.0 nTPM
Amygdala	17.0 nTPM
Cerebral cortex	15.8 nTPM

Deep-layer intratelencephalic	34.6 nTPM
Amygdala	47.1 nTPM
Basal ganglia	39.3 nTPM
Cerebral cortex	35.6 nTPM
Hypothalamus	26.4 nTPM
Hippocampus	24.8 nTPM

Deep-layer near-projecting	40.4 nTPM
Amygdala	47.5 nTPM
Hypothalamus	43.9 nTPM
Basal ganglia	43.7 nTPM
Cerebral cortex	34.6 nTPM
Hippocampus	32.5 nTPM

Eccentric medium spiny neuron	38.8 nTPM
Basal ganglia	40.4 nTPM
Hypothalamus	40.4 nTPM
Hippocampus	40.2 nTPM
Amygdala	39.7 nTPM
Thalamus	38.6 nTPM
Cerebral cortex	33.4 nTPM

Endothelial cell	44.2 nTPM
Hypothalamus	57.1 nTPM
Hippocampus	55.1 nTPM
Amygdala	53.7 nTPM
Basal ganglia	50.3 nTPM
Cerebral cortex	45.4 nTPM
Midbrain	43.5 nTPM
Spinal cord	41.4 nTPM
Thalamus	38.4 nTPM
Pons	38.1 nTPM
Medulla oblongata	33.8 nTPM
Cerebellum	29.4 nTPM