Single cell type - IFT74 - 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.	IFT74
Gene descriptionⁱ Full gene name according to HGNC.	Intraflagellar transport 74
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes
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	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	Cell type enhanced (Spermatocytes, Respiratory ciliated cells, Endometrial ciliated 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 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 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 (Spermatocytes, Respiratory ciliated cells, Endometrial ciliated 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

IFT74 is part of cluster 66 Spermatocytes - Spermatogenesis with confidenceⁱ 1
507 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
CFAP99	Cilia and flagella associated protein 99	0.7000	49
CFAP53	Cilia and flagella associated protein 53	0.6814	49
PPP1R42	Protein phosphatase 1 regulatory subunit 42	0.6786	49
CCNA1	Cyclin A1	0.6777	66
C16orf71	Chromosome 16 open reading frame 71	0.6567	66
CDK20	Cyclin dependent kinase 20	0.6407	49
BBOF1	Basal body orientation factor 1	0.6369	49
POM121L2	POM121 transmembrane nucleoporin like 2	0.6099	66
ZMYND10	Zinc finger MYND-type containing 10	0.6013	49
CLGN	Calmegin	0.5961	66
C22orf23	Chromosome 22 open reading frame 23	0.5928	66
POM121L12	POM121 transmembrane nucleoporin like 12	0.5922	66
FAM227B	Family with sequence similarity 227 member B	0.5916	66
CDKL2	Cyclin dependent kinase like 2	0.5902	66
COPRS	Coordinator of PRMT5 and differentiation stimulator	0.5839	66

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	10.1 nTPM
Breast	12.5 nTPM
Adipose tissue	7.7 nTPM

Alveolar cells type 1	32.1 nTPM
Lung	32.1 nTPM

Alveolar cells type 2	27.4 nTPM
Lung	27.4 nTPM

Astrocytes	27.4 nTPM
Brain	27.4 nTPM

B-cells	8.2 nTPM
PBMC	11.5 nTPM
Spleen	11.1 nTPM
Stomach	10.9 nTPM
Lymph node	9.9 nTPM
Liver	9.7 nTPM
Breast	9.4 nTPM
Adipose tissue	7.5 nTPM
Bone marrow	7.4 nTPM
Kidney	4.8 nTPM
Colon	0.0 nTPM

Dendritic cells	3.4 nTPM
Adipose tissue	5.5 nTPM
Breast	4.7 nTPM
PBMC	0.0 nTPM

Endothelial cells	12.1 nTPM
Lung	24.9 nTPM
Eye	20.3 nTPM
Placenta	17.0 nTPM
Heart muscle	16.6 nTPM
Endometrium	15.2 nTPM
Testis	13.9 nTPM
Breast	10.6 nTPM
Liver	10.1 nTPM
Ovary	9.8 nTPM
Skeletal muscle	9.6 nTPM
Esophagus	6.8 nTPM
Prostate	5.8 nTPM
Skin	5.6 nTPM
Pancreas	3.9 nTPM

Fibroblasts	14.8 nTPM
Heart muscle	34.1 nTPM
Skeletal muscle	20.2 nTPM
Adipose tissue	19.1 nTPM
Ovary	16.3 nTPM
Breast	14.2 nTPM
Lung	13.4 nTPM
Placenta	12.7 nTPM
Esophagus	10.8 nTPM
Prostate	9.1 nTPM
Stomach	8.9 nTPM
Skin	4.4 nTPM

Intestinal goblet cells	13.5 nTPM
Rectum	14.7 nTPM
Colon	12.9 nTPM
Small intestine	12.9 nTPM

Macrophages	9.3 nTPM
Lung	20.1 nTPM
Ovary	15.0 nTPM
Endometrium	14.7 nTPM
Skeletal muscle	14.5 nTPM
Esophagus	14.2 nTPM
Adipose tissue	11.5 nTPM
Breast	11.5 nTPM
Spleen	10.4 nTPM
Pancreas	7.7 nTPM
Testis	6.9 nTPM
Kidney	6.1 nTPM
Bone marrow	5.0 nTPM
Prostate	2.2 nTPM
PBMC	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	10.5 nTPM
Rectum	13.8 nTPM
Small intestine	11.3 nTPM
Colon	6.5 nTPM

Plasma cells	7.7 nTPM
Bone marrow	11.5 nTPM
Adipose tissue	9.1 nTPM
Stomach	6.3 nTPM
Esophagus	6.1 nTPM
Spleen	5.6 nTPM

Respiratory ciliated cells	97.4 nTPM
Lung	150.1 nTPM
Bronchus	44.7 nTPM

Smooth muscle cells	25.4 nTPM
Bronchus	118.0 nTPM
Heart muscle	23.3 nTPM
Breast	20.5 nTPM
Endometrium	20.3 nTPM
Esophagus	18.6 nTPM
Adipose tissue	16.1 nTPM
Ovary	15.9 nTPM
Skeletal muscle	15.4 nTPM
Pancreas	14.8 nTPM
Prostate	9.1 nTPM
Skin	7.8 nTPM

T-cells	8.3 nTPM
Lung	15.2 nTPM
Ovary	13.4 nTPM
Endometrium	13.3 nTPM
Kidney	10.2 nTPM
Skeletal muscle	9.7 nTPM
Prostate	9.5 nTPM
Lymph node	9.5 nTPM
Breast	9.3 nTPM
PBMC	9.2 nTPM
Stomach	7.9 nTPM
Adipose tissue	7.1 nTPM
Spleen	6.9 nTPM
Liver	5.6 nTPM
Bone marrow	5.3 nTPM
Skin	4.6 nTPM
Colon	3.8 nTPM
Esophagus	0.0 nTPM

Cholangiocytes	7.2 nTPM
Liver	7.2 nTPM

Collecting duct cells	16.5 nTPM
Kidney	16.5 nTPM

Cone photoreceptor cells	22.9 nTPM
Eye	22.9 nTPM

Cytotrophoblasts	23.1 nTPM
Placenta	23.1 nTPM

Undifferentiated cells	17.2 nTPM
Colon	20.2 nTPM
Rectum	18.2 nTPM
Small intestine	13.2 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