Single cell type - CCDC71 - 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.	CCDC71
Gene descriptionⁱ Full gene name according to HGNC.	Coiled-coil domain containing 71
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.	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. Read more	Respiratory epithelial cells - Mucosal defense (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	Immune cell enhanced (NK-cell)
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 many
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

CCDC71 is part of cluster 26 Respiratory epithelial cells - Mucosal defense with confidenceⁱ 0.63
293 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
SLC35B2	Solute carrier family 35 member B2	0.6367	55
TMEM69	Transmembrane protein 69	0.6258	61
ZFYVE21	Zinc finger FYVE-type containing 21	0.5841	26
LOXL4	Lysyl oxidase like 4	0.5710	26
SNAPIN	SNAP associated protein	0.5693	26
TRIAP1	TP53 regulated inhibitor of apoptosis 1	0.5634	47
SPAG7	Sperm associated antigen 7	0.5488	26
MAGEF1	MAGE family member F1	0.5418	39
RABGGTA	Rab geranylgeranyltransferase subunit alpha	0.5398	26
MRPS28	Mitochondrial ribosomal protein S28	0.5343	26
KPTN	Kaptin, actin binding protein	0.5265	55
FUNDC1	FUN14 domain containing 1	0.5246	39
C1GALT1C1	C1GALT1 specific chaperone 1	0.5194	26
ANKRA2	Ankyrin repeat family A member 2	0.5126	26
PDHB	Pyruvate dehydrogenase E1 subunit beta	0.5099	39

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	5.1 nTPM
Breast	6.4 nTPM
Adipose tissue	3.8 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	1.5 nTPM
Lung	1.5 nTPM

Astrocytes	1.6 nTPM
Brain	1.6 nTPM

B-cells	7.9 nTPM
Bone marrow	13.1 nTPM
PBMC	12.9 nTPM
Stomach	12.7 nTPM
Kidney	9.5 nTPM
Liver	8.8 nTPM
Spleen	8.3 nTPM
Colon	6.4 nTPM
Lymph node	5.5 nTPM
Adipose tissue	2.0 nTPM
Breast	0.0 nTPM

Dendritic cells	4.1 nTPM
PBMC	8.0 nTPM
Breast	2.2 nTPM
Adipose tissue	2.0 nTPM

Endothelial cells	8.0 nTPM
Placenta	21.6 nTPM
Pancreas	15.5 nTPM
Esophagus	11.8 nTPM
Testis	11.2 nTPM
Liver	11.0 nTPM
Eye	7.3 nTPM
Breast	6.9 nTPM
Skin	6.6 nTPM
Prostate	4.7 nTPM
Ovary	4.6 nTPM
Skeletal muscle	4.1 nTPM
Lung	3.1 nTPM
Endometrium	2.9 nTPM
Heart muscle	0.3 nTPM

Fibroblasts	7.7 nTPM
Placenta	20.0 nTPM
Stomach	13.4 nTPM
Esophagus	13.1 nTPM
Breast	8.1 nTPM
Prostate	6.7 nTPM
Ovary	6.7 nTPM
Adipose tissue	5.1 nTPM
Skeletal muscle	5.0 nTPM
Skin	4.9 nTPM
Lung	1.2 nTPM
Heart muscle	0.3 nTPM

Intestinal goblet cells	8.4 nTPM
Small intestine	9.9 nTPM
Rectum	9.7 nTPM
Colon	5.8 nTPM

Macrophages	5.3 nTPM
Kidney	12.9 nTPM
Pancreas	12.8 nTPM
Bone marrow	10.0 nTPM
Testis	6.4 nTPM
Esophagus	6.3 nTPM
Ovary	6.1 nTPM
Stomach	5.9 nTPM
Prostate	5.7 nTPM
Breast	4.4 nTPM
Spleen	4.2 nTPM
Adipose tissue	1.8 nTPM
Skeletal muscle	1.4 nTPM
Lung	1.3 nTPM
Endometrium	0.4 nTPM
PBMC	0.0 nTPM

Paneth cells	9.3 nTPM
Rectum	10.4 nTPM
Colon	9.9 nTPM
Small intestine	7.5 nTPM

Plasma cells	9.3 nTPM
Esophagus	18.4 nTPM
Bone marrow	11.5 nTPM
Stomach	8.3 nTPM
Spleen	8.2 nTPM
Adipose tissue	0.0 nTPM

Respiratory ciliated cells	7.1 nTPM
Bronchus	11.4 nTPM
Lung	2.9 nTPM

Smooth muscle cells	7.0 nTPM
Pancreas	25.1 nTPM
Bronchus	7.5 nTPM
Skin	7.4 nTPM
Ovary	7.1 nTPM
Esophagus	6.2 nTPM
Breast	5.8 nTPM
Skeletal muscle	4.8 nTPM
Prostate	4.7 nTPM
Adipose tissue	4.6 nTPM
Endometrium	3.4 nTPM
Heart muscle	0.4 nTPM

T-cells	5.8 nTPM
Bone marrow	17.9 nTPM
Kidney	14.4 nTPM
Stomach	13.4 nTPM
PBMC	12.1 nTPM
Liver	9.0 nTPM
Ovary	6.7 nTPM
Spleen	5.1 nTPM
Colon	3.8 nTPM
Skin	3.3 nTPM
Lymph node	3.2 nTPM
Breast	2.8 nTPM
Skeletal muscle	1.8 nTPM
Adipose tissue	1.7 nTPM
Endometrium	1.6 nTPM
Lung	1.5 nTPM
Prostate	0.0 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	2.7 nTPM
Skin	2.7 nTPM

Basal prostatic cells	12.5 nTPM
Prostate	12.5 nTPM

Basal respiratory cells	23.8 nTPM
Bronchus	23.8 nTPM

Cytotrophoblasts	23.3 nTPM
Placenta	23.3 nTPM

Undifferentiated cells	8.2 nTPM
Small intestine	10.6 nTPM
Rectum	10.1 nTPM
Colon	3.9 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