Single cell type - SEC14L1 - 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.	SEC14L1
Gene descriptionⁱ Full gene name according to HGNC.	SEC14 like lipid binding 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Plasma 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. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	16

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	Spermatids - Spermatogenesis (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	Cell type enhanced (Late spermatids, Adipocytes, Hepatic stellate cells)
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	Immune cell enriched (neutrophil)
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	Cell line enhanced (HUVEC TERT2, TIME)
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: Cell type enhanced (Late spermatids, Adipocytes, Hepatic stellate cells)

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

SEC14L1 is part of cluster 25 Spermatids - Spermatogenesis with confidenceⁱ 1
458 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
SERINC3	Serine incorporator 3	0.5566	25
SLC10A6	Solute carrier family 10 member 6	0.5470	25
SRP54	Signal recognition particle 54	0.5433	25
JMJD4	Jumonji domain containing 4	0.5295	25
INPP5K	Inositol polyphosphate-5-phosphatase K	0.5244	25
IFIH1	Interferon induced with helicase C domain 1	0.5193	25
PEX10	Peroxisomal biogenesis factor 10	0.5128	25
LIPE	Lipase E, hormone sensitive type	0.5123	25
ADAT1	Adenosine deaminase tRNA specific 1	0.5048	25
OSER1	Oxidative stress responsive serine rich 1	0.5048	25
ATXN1L	Ataxin 1 like	0.5040	25
UBA5	Ubiquitin like modifier activating enzyme 5	0.4950	25
SERPINA5	Serpin family A member 5	0.4943	44
ARL4A	ADP ribosylation factor like GTPase 4A	0.4929	25
WDR45B	WD repeat domain 45B	0.4919	31

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

Alveolar cells type 1	41.7 nTPM
Lung	41.7 nTPM

Alveolar cells type 2	18.6 nTPM
Lung	18.6 nTPM

Astrocytes	55.8 nTPM
Brain	55.8 nTPM

B-cells	69.4 nTPM
Liver	147.4 nTPM
Breast	144.4 nTPM
Colon	92.6 nTPM
Adipose tissue	74.2 nTPM
Stomach	57.2 nTPM
Spleen	44.7 nTPM
Lymph node	43.5 nTPM
PBMC	34.3 nTPM
Bone marrow	31.9 nTPM
Kidney	23.8 nTPM

Basal keratinocytes	29.3 nTPM
Skin	29.3 nTPM

Adipocytes	430.3 nTPM
Adipose tissue	615.4 nTPM
Breast	245.2 nTPM

Dendritic cells	77.5 nTPM
Adipose tissue	178.7 nTPM
Breast	37.9 nTPM
PBMC	16.0 nTPM

Endothelial cells	205.9 nTPM
Skeletal muscle	453.4 nTPM
Heart muscle	370.9 nTPM
Ovary	236.3 nTPM
Liver	235.8 nTPM
Testis	230.8 nTPM
Prostate	227.9 nTPM
Eye	211.2 nTPM
Pancreas	162.1 nTPM
Breast	155.7 nTPM
Endometrium	148.4 nTPM
Esophagus	131.9 nTPM
Skin	116.9 nTPM
Lung	102.9 nTPM
Placenta	98.9 nTPM

Fibroblasts	34.0 nTPM
Stomach	65.3 nTPM
Heart muscle	42.6 nTPM
Adipose tissue	41.4 nTPM
Lung	36.9 nTPM
Skeletal muscle	36.0 nTPM
Prostate	33.5 nTPM
Ovary	28.6 nTPM
Skin	28.3 nTPM
Esophagus	24.7 nTPM
Breast	21.2 nTPM
Placenta	15.5 nTPM

Intestinal goblet cells	14.0 nTPM
Rectum	16.3 nTPM
Colon	15.7 nTPM
Small intestine	10.0 nTPM

Macrophages	115.1 nTPM
Adipose tissue	289.9 nTPM
Spleen	191.9 nTPM
Stomach	172.9 nTPM
Ovary	162.7 nTPM
Bone marrow	125.0 nTPM
PBMC	122.7 nTPM
Prostate	118.1 nTPM
Skeletal muscle	97.3 nTPM
Kidney	90.8 nTPM
Esophagus	81.8 nTPM
Endometrium	74.2 nTPM
Breast	61.6 nTPM
Lung	55.4 nTPM
Testis	52.3 nTPM
Pancreas	30.7 nTPM

Paneth cells	15.2 nTPM
Colon	23.1 nTPM
Rectum	14.9 nTPM
Small intestine	7.5 nTPM

Plasma cells	269.1 nTPM
Stomach	362.9 nTPM
Spleen	314.6 nTPM
Bone marrow	258.7 nTPM
Esophagus	233.9 nTPM
Adipose tissue	175.4 nTPM

Respiratory ciliated cells	69.5 nTPM
Bronchus	70.4 nTPM
Lung	68.5 nTPM

Smooth muscle cells	36.3 nTPM
Ovary	119.4 nTPM
Skeletal muscle	43.1 nTPM
Heart muscle	38.6 nTPM
Endometrium	38.4 nTPM
Breast	30.7 nTPM
Adipose tissue	26.5 nTPM
Esophagus	24.8 nTPM
Prostate	22.2 nTPM
Pancreas	21.7 nTPM
Bronchus	18.0 nTPM
Skin	16.1 nTPM

Collecting duct cells	27.6 nTPM
Kidney	27.6 nTPM

Cone photoreceptor cells	18.8 nTPM
Eye	18.8 nTPM

Cytotrophoblasts	10.8 nTPM
Placenta	10.8 nTPM

Distal enterocytes	20.3 nTPM
Colon	20.6 nTPM
Rectum	20.0 nTPM

T-cells	51.6 nTPM
Adipose tissue	152.8 nTPM
Stomach	88.5 nTPM
Prostate	80.4 nTPM
Colon	70.8 nTPM
Endometrium	70.3 nTPM
Lung	51.6 nTPM
Skeletal muscle	51.2 nTPM
Esophagus	45.9 nTPM
Spleen	45.1 nTPM
Liver	36.8 nTPM
Lymph node	30.3 nTPM
Ovary	28.9 nTPM
Kidney	28.7 nTPM
Bone marrow	28.2 nTPM
Breast	25.5 nTPM
Skin	22.6 nTPM
PBMC	20.2 nTPM

Undifferentiated cells	11.5 nTPM
Rectum	14.1 nTPM
Colon	10.2 nTPM
Small intestine	10.2 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