Single cell type - MMS19 - 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.	MMS19
Gene descriptionⁱ Full gene name according to HGNC.	MMS19 homolog, cytosolic iron-sulfur assembly component
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.	8

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	Spermatogonia & Spermatocytes - 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	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. 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	Low cell line specificity
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: Low cell type specificity

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

MMS19 is part of cluster 20 Spermatogonia & Spermatocytes - Spermatogenesis with confidenceⁱ 1
181 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
TADA1	Transcriptional adaptor 1	0.4516	59
PARN	Poly(A)-specific ribonuclease	0.4465	52
NCKIPSD	NCK interacting protein with SH3 domain	0.4459	43
RBPJL	Recombination signal binding protein for immunoglobulin kappa J region like	0.4424	43
SHQ1	SHQ1, H/ACA ribonucleoprotein assembly factor	0.4376	20
CRYGS	Crystallin gamma S	0.4279	43
CNPY1	Canopy FGF signaling regulator 1	0.4272	20
IGF2BP1	Insulin like growth factor 2 mRNA binding protein 1	0.4214	33
POLR3G	RNA polymerase III subunit G	0.4140	42
ORC5	Origin recognition complex subunit 5	0.4127	59
ZNF212	Zinc finger protein 212	0.4068	20
SPDYE2B	Speedy/RINGO cell cycle regulator family member E2B	0.4056	43
CT45A5	Cancer/testis antigen family 45 member A5	0.3990	11
KRT26	Keratin 26	0.3978	20
CTAG2	Cancer/testis antigen 2	0.3946	20

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	9.4 nTPM
Adipose tissue	10.5 nTPM
Breast	8.2 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	16.0 nTPM
Lung	16.0 nTPM

Astrocytes	21.2 nTPM
Brain	21.2 nTPM

B-cells	10.0 nTPM
Stomach	20.9 nTPM
Bone marrow	18.0 nTPM
Spleen	16.0 nTPM
Lymph node	13.8 nTPM
Liver	11.4 nTPM
Breast	6.6 nTPM
Kidney	4.8 nTPM
Adipose tissue	4.5 nTPM
PBMC	4.3 nTPM
Colon	0.0 nTPM

Dendritic cells	13.4 nTPM
PBMC	23.9 nTPM
Adipose tissue	8.2 nTPM
Breast	8.1 nTPM

Endothelial cells	13.0 nTPM
Heart muscle	32.0 nTPM
Ovary	18.1 nTPM
Placenta	17.6 nTPM
Testis	17.4 nTPM
Liver	14.7 nTPM
Pancreas	11.6 nTPM
Prostate	10.9 nTPM
Endometrium	10.8 nTPM
Eye	9.7 nTPM
Skeletal muscle	9.6 nTPM
Skin	9.3 nTPM
Esophagus	8.8 nTPM
Breast	8.0 nTPM
Lung	3.1 nTPM

Fibroblasts	9.9 nTPM
Placenta	18.1 nTPM
Heart muscle	13.9 nTPM
Ovary	12.9 nTPM
Skeletal muscle	11.2 nTPM
Esophagus	10.5 nTPM
Adipose tissue	9.3 nTPM
Skin	9.0 nTPM
Breast	7.4 nTPM
Prostate	7.2 nTPM
Lung	4.5 nTPM
Stomach	4.4 nTPM

Intestinal goblet cells	14.6 nTPM
Small intestine	15.5 nTPM
Rectum	15.3 nTPM
Colon	12.9 nTPM

Macrophages	9.0 nTPM
Stomach	20.5 nTPM
Testis	16.3 nTPM
Spleen	15.6 nTPM
Lung	13.3 nTPM
Ovary	10.8 nTPM
Skeletal muscle	8.7 nTPM
Bone marrow	8.7 nTPM
Kidney	7.6 nTPM
Endometrium	7.5 nTPM
Adipose tissue	7.1 nTPM
Breast	6.8 nTPM
Prostate	5.7 nTPM
Esophagus	3.1 nTPM
Pancreas	2.5 nTPM
PBMC	0.0 nTPM

Paneth cells	4.1 nTPM
Rectum	9.1 nTPM
Colon	3.3 nTPM
Small intestine	0.0 nTPM

Plasma cells	10.7 nTPM
Spleen	15.7 nTPM
Stomach	15.7 nTPM
Bone marrow	13.2 nTPM
Adipose tissue	9.1 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	7.6 nTPM
Bronchus	10.9 nTPM
Lung	4.4 nTPM

Smooth muscle cells	8.8 nTPM
Pancreas	17.1 nTPM
Heart muscle	12.5 nTPM
Esophagus	12.4 nTPM
Adipose tissue	8.5 nTPM
Skin	7.7 nTPM
Skeletal muscle	7.7 nTPM
Endometrium	7.4 nTPM
Ovary	7.4 nTPM
Bronchus	5.7 nTPM
Breast	5.5 nTPM
Prostate	5.3 nTPM

T-cells	9.7 nTPM
Lymph node	19.7 nTPM
Bone marrow	19.1 nTPM
Stomach	15.7 nTPM
Spleen	13.0 nTPM
PBMC	12.6 nTPM
Lung	10.6 nTPM
Skin	10.2 nTPM
Liver	9.1 nTPM
Ovary	8.9 nTPM
Endometrium	8.3 nTPM
Adipose tissue	8.0 nTPM
Breast	7.7 nTPM
Kidney	7.5 nTPM
Skeletal muscle	7.2 nTPM
Colon	6.6 nTPM
Prostate	0.0 nTPM
Esophagus	0.0 nTPM

Basal prostatic cells	6.2 nTPM
Prostate	6.2 nTPM

Basal respiratory cells	11.3 nTPM
Bronchus	11.3 nTPM

Cholangiocytes	12.8 nTPM
Liver	12.8 nTPM

Cone photoreceptor cells	18.8 nTPM
Eye	18.8 nTPM

Undifferentiated cells	13.1 nTPM
Small intestine	13.8 nTPM
Rectum	13.7 nTPM
Colon	11.9 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