Tissue expression of SMIM33 - Summary - 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.	SMIM33
Gene descriptionⁱ Full gene name according to HGNC.	Small integral membrane protein 33
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	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of data presented in the Tissue section, with a representative image of protein expression (left) and an interactive chart showing the tissue-specific mRNA expression (right). The image and the chart are clickable and will redirect to more Tissue data. This section contains information regarding the expression profiles of protein-coding genes in normal human tissue, both on the mRNA and protein level. The protein expression data is derived from antibody-based protein profiling using immunohistochemistry. Read more
Tissue expression cluster (RNA)ⁱ The RNA data was used to cluster genes according to their expression across tissues. 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	Intestine - Brush border (mainly)
Tissue specificity (RNA)ⁱ The RNA specificity category is based on mRNA expression levels in the consensus dataset which is calculated from the RNA expression levels in samples from HPA and GTEX. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected. Read more	Tissue enhanced (intestine, salivary gland)
Tissue distribution (RNA)ⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on a combination of data from HPA and GTEX. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in some
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 transcript level

IMMUNOHISTOCHEMISTRY DATA RELIABILITY

Reliability scoreⁱ

Pending normal tissue annotation.

RNA AND PROTEIN EXPRESSION SUMMARYⁱ

Expression

Detection

All organs

RNA expression (nTPM)ⁱ

Protein expression (score)ⁱ

Brain

Amygdala			N/A
Basal ganglia			N/A
Thalamus			N/A
Midbrain			N/A
Pons			N/A
Medulla oblongata			N/A
Hippocampal formation			N/A
Spinal cord			N/A
White matter			N/A
Cerebral cortex			N/A
Cerebellum			N/A
Choroid plexus			N/A
Hypothalamus			N/A

Eye

Retina

N/A

Endocrine tissues

Thyroid gland			N/A
Parathyroid gland			N/A
Adrenal gland			N/A
Pituitary gland			N/A

Respiratory system

Lung

N/A

Proximal digestive tract

Salivary gland			N/A
Esophagus			N/A
Tongue			N/A

Gastrointestinal tract

Stomach			N/A
Small intestine			N/A
Colon			N/A
Rectum			N/A
Duodenum			N/A

Liver & Gallbladder

Liver			N/A
Gallbladder			N/A

Pancreas

N/A

Kidney & Urinary bladder

Kidney			N/A
Urinary bladder			N/A

Male tissues

Testis			N/A
Epididymis			N/A
Prostate			N/A
Seminal vesicle			N/A

Female tissues

Vagina			N/A
Breast			N/A
Cervix			N/A
Endometrium			N/A
Fallopian tube			N/A
Ovary			N/A
Placenta			N/A

Muscle tissues

Heart muscle			N/A
Skeletal muscle			N/A
Smooth muscle			N/A

Connective & Soft tissue

Adipose tissue

N/A

Skin

N/A

Bone marrow & Lymphoid tissues

Bone marrow			N/A
Appendix			N/A
Thymus			N/A
Spleen			N/A
Lymph node			N/A
Tonsil			N/A

EXPRESSION CLUSTERING & CORRELATIONⁱ

SMIM33 is part of cluster 45 Intestine - Brush border with confidenceⁱ 0.76
134 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on tissue 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
SLC12A2	Solute carrier family 12 member 2	0.8684	45
PLPP2	Phospholipid phosphatase 2	0.8544	22
EDIL3	EGF like repeats and discoidin domains 3	0.8333	70
BCL2L2	BCL2 like 2	0.8228	45
SLC39A11	Solute carrier family 39 member 11	0.8193	22
MAP7	Microtubule associated protein 7	0.8140	45
CKMT1B	Creatine kinase, mitochondrial 1B	0.8105	45
SLC22A23	Solute carrier family 22 member 23	0.7982	45
UBL3	Ubiquitin like 3	0.7930	22
ARFGEF3	ARFGEF family member 3	0.7895	22
ERBB3	Erb-b2 receptor tyrosine kinase 3	0.7895	45
FUT2	Fucosyltransferase 2	0.7807	37
RFLNA	Refilin A	0.7807	4
GALNT6	Polypeptide N-acetylgalactosaminyltransferase 6	0.7789	4
GOLM1	Golgi membrane protein 1	0.7754	57

PROTEIN EXPRESSION OVERVIEWⁱ Protein expression data is shown for each of the 44 tissues. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. Mouse-over function shows protein score for analyzed cell types in a selected tissue. To access image data click on tissue name or bar. Annotation of protein expression is described in detail in Assays & annotation. For genes with available protein data for which a knowledge-based annotation gave inconclusive results, no protein expression data is displayed in the protein expression data overview. However, all immunohistochemical images are still available and the annotation data can be found under Primary data.
Pending normal tissue annotation.

RNA EXPRESSION OVERVIEWⁱ RNA expression overview shows RNA-data from two different sources: Internally generated Human Protein Atlas (HPA) RNA-seq data and RNA-seq data from the Genotype-Tissue Expression (GTEx) project, as well as the consensus dataset which is based on a combination of both sources. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar. Read more
Consensus datasetⁱ The consensus dataset consists of normalized expression (nTPM) levels for 55 tissue types, created by combining the HPA and GTEx transcriptomics datasets using the internal normalization pipeline. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar. Read more about how the datasets were combined into consensus normalized expression levels in Assays & Annotation. Read more Organ Expression Alphabetical RNA tissue specificity: Tissue enhanced (intestine, salivary gland)
HPA datasetⁱ The HPA RNA-seq tissue data is reported as nTPM (normalized protein-coding transcripts per million), corresponding to mean values of the different individual samples from each tissue. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar. The HPA RNA-seq assay is described in detail in Assays & Annotation. Read more Organ Expression Alphabetical
GTEx datasetⁱ The RNA-seq tissue data generated by the Genotype-Tissue Expression (GTEx) project is reported as nTPM (normalized protein-coding transcripts per million), corresponding to mean values of the different individual samples from each tissue. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar. The GTEx RNA-seq assay is described in detail in Assays & Annotation. Organ Expression Alphabetical

FANTOM EXPRESSION OVERVIEW
FANTOM5 datasetⁱ The tissue data for RNA expression obtained through Cap Analysis of Gene Expression (CAGE) generated by the FANTOM5 project are reported as Scaled Tags Per Million. Color-coding is based on tissue groups, each consisting of tissues with functional features in common. To access sample data, click on tissue name or bar. The CAGE method is described in detail in Assays & Annotation. not available for this gene.