Single cell type - SH3YL1 - 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.	SH3YL1
Gene descriptionⁱ Full gene name according to HGNC.	SH3 and SYLF domain containing 1
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.	12

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	Proximal tubular cells - Tubular reabsorption (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 (Proximal tubular 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	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	Cell line enhanced (OE19)
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 many
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 (Proximal tubular 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

SH3YL1 is part of cluster 67 Proximal tubular cells - Tubular reabsorption with confidenceⁱ 1
499 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
NAT8	N-acetyltransferase 8 (putative)	0.6495	67
SLC22A8	Solute carrier family 22 member 8	0.6495	67
CLTRN	Collectrin, amino acid transport regulator	0.6491	67
SLC22A12	Solute carrier family 22 member 12	0.6467	67
SLC22A2	Solute carrier family 22 member 2	0.6444	67
SLC22A6	Solute carrier family 22 member 6	0.6427	67
UGT2B7	UDP glucuronosyltransferase family 2 member B7	0.6421	67
SLC34A1	Solute carrier family 34 member 1	0.6398	67
PDZK1IP1	PDZK1 interacting protein 1	0.6395	67
ABCC6	ATP binding cassette subfamily C member 6	0.6353	67
SLC17A3	Solute carrier family 17 member 3	0.6276	67
RNF224	Ring finger protein 224	0.6272	67
PDZK1	PDZ domain containing 1	0.6261	67
FCAMR	Fc fragment of IgA and IgM receptor	0.6254	67
SLC3A1	Solute carrier family 3 member 1	0.6251	67

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	14.8 nTPM
Breast	16.9 nTPM
Adipose tissue	12.8 nTPM

Alveolar cells type 1	57.7 nTPM
Lung	57.7 nTPM

Alveolar cells type 2	116.7 nTPM
Lung	116.7 nTPM

Astrocytes	51.2 nTPM
Brain	51.2 nTPM

B-cells	29.7 nTPM
PBMC	67.1 nTPM
Kidney	66.6 nTPM
Colon	46.4 nTPM
Adipose tissue	42.2 nTPM
Breast	17.3 nTPM
Spleen	13.9 nTPM
Lymph node	10.9 nTPM
Stomach	10.9 nTPM
Liver	10.7 nTPM
Bone marrow	10.6 nTPM

Dendritic cells	15.8 nTPM
Breast	19.7 nTPM
Adipose tissue	15.7 nTPM
PBMC	12.0 nTPM

Endothelial cells	15.9 nTPM
Placenta	30.7 nTPM
Breast	29.9 nTPM
Prostate	21.6 nTPM
Endometrium	20.1 nTPM
Testis	19.6 nTPM
Skin	16.7 nTPM
Liver	16.5 nTPM
Eye	16.2 nTPM
Ovary	13.3 nTPM
Heart muscle	12.1 nTPM
Skeletal muscle	8.7 nTPM
Esophagus	7.7 nTPM
Lung	6.2 nTPM
Pancreas	3.9 nTPM

Fibroblasts	22.6 nTPM
Skin	33.5 nTPM
Ovary	30.5 nTPM
Breast	29.0 nTPM
Placenta	28.9 nTPM
Adipose tissue	22.6 nTPM
Prostate	20.6 nTPM
Esophagus	18.5 nTPM
Skeletal muscle	17.8 nTPM
Heart muscle	17.1 nTPM
Lung	16.8 nTPM
Stomach	13.4 nTPM

Intestinal goblet cells	97.4 nTPM
Rectum	129.6 nTPM
Colon	90.8 nTPM
Small intestine	71.9 nTPM

Macrophages	14.9 nTPM
Kidney	54.4 nTPM
Endometrium	24.9 nTPM
Breast	21.8 nTPM
Lung	16.1 nTPM
Prostate	16.0 nTPM
Pancreas	15.3 nTPM
Spleen	13.5 nTPM
Bone marrow	11.3 nTPM
Ovary	10.9 nTPM
Adipose tissue	10.5 nTPM
Testis	9.8 nTPM
Esophagus	7.9 nTPM
Skeletal muscle	7.7 nTPM
Stomach	2.9 nTPM
PBMC	0.0 nTPM

Paneth cells	115.3 nTPM
Rectum	146.1 nTPM
Colon	102.1 nTPM
Small intestine	97.6 nTPM

Plasma cells	4.7 nTPM
Adipose tissue	16.1 nTPM
Stomach	4.9 nTPM
Spleen	2.6 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	85.2 nTPM
Bronchus	107.7 nTPM
Lung	62.7 nTPM

Smooth muscle cells	20.5 nTPM
Bronchus	61.3 nTPM
Prostate	29.3 nTPM
Ovary	22.1 nTPM
Skin	20.2 nTPM
Endometrium	19.8 nTPM
Breast	19.7 nTPM
Adipose tissue	13.3 nTPM
Pancreas	11.8 nTPM
Esophagus	10.9 nTPM
Heart muscle	9.0 nTPM
Skeletal muscle	8.6 nTPM

T-cells	35.7 nTPM
PBMC	166.1 nTPM
Kidney	93.1 nTPM
Adipose tissue	43.7 nTPM
Skin	40.6 nTPM
Breast	39.6 nTPM
Colon	39.5 nTPM
Endometrium	35.4 nTPM
Lung	30.4 nTPM
Skeletal muscle	23.1 nTPM
Prostate	19.0 nTPM
Lymph node	16.1 nTPM
Liver	16.0 nTPM
Ovary	15.6 nTPM
Spleen	10.7 nTPM
Bone marrow	9.5 nTPM
Stomach	7.8 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	82.7 nTPM
Skin	82.7 nTPM

Basal prostatic cells	173.5 nTPM
Prostate	173.5 nTPM

Basal respiratory cells	174.4 nTPM
Bronchus	174.4 nTPM

Basal squamous epithelial cells	42.7 nTPM
Esophagus	42.7 nTPM

Undifferentiated cells	123.8 nTPM
Rectum	145.9 nTPM
Small intestine	117.6 nTPM
Colon	107.8 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