Cell line - SMCO2 - 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.	SMCO2
Gene descriptionⁱ Full gene name according to HGNC.	Single-pass membrane protein with coiled-coil domains 2
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.	3

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Cell line expression clusterⁱ The RNA data was used to cluster genes according to their expression across cell lines. 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	Epithelial cell lines - Epithelial cell function (mainly)
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 (CAPAN-2, HDLM-2)
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 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

CELL LINESⁱ

Organ

Expression

Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SMCO2 is part of cluster 42 Epithelial cell lines - Epithelial cell function with confidenceⁱ 1
593 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on cell line 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
SFR1	SWI5 dependent homologous recombination repair protein 1	0.6239	42
TRIM7	Tripartite motif containing 7	0.6055	42
ARNTL2	Aryl hydrocarbon receptor nuclear translocator like 2	0.5881	18
TMEM54	Transmembrane protein 54	0.5709	42
PARP12	Poly(ADP-ribose) polymerase family member 12	0.5555	4
GALNT7	Polypeptide N-acetylgalactosaminyltransferase 7	0.5526	41
CAB39	Calcium binding protein 39	0.5494	42
OCIAD2	OCIA domain containing 2	0.5492	42
KLK6	Kallikrein related peptidase 6	0.5476	42
CTSH	Cathepsin H	0.5433	42
MITD1	Microtubule interacting and trafficking domain containing 1	0.5425	24
CCDC61	Coiled-coil domain containing 61	0.5397	24
IL15RA	Interleukin 15 receptor subunit alpha	0.5397	42
ARL14	ADP ribosylation factor like GTPase 14	0.5354	42
PSD4	Pleckstrin and Sec7 domain containing 4	0.5279	42