Subcellular - SNX6 - 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.	SNX6
Gene descriptionⁱ Full gene name according to HGNC.	Sorting nexin 6
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Plasma proteins
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.	5

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Main locationⁱ Main subcellular location(s) and reliability score(s) for the encoded protein(s) in human cells. The main location(s) may be characterized by presence in all tested cell lines and/or ihigher staining intensity compared to the potential additional location(s). If available, links to overrepresentation analyses in Reactome, a free, open-source, curated and peer reviewed biological pathway database, are provided. An analysis is done for the corresponding gene set of the proteome localizing to the main and additional locations of the protein on this page, respectively. Read more	Localized to the Endosomes (supported), Lysosomes (supported)
Mouseⁱ Subcellular location for the protein(s) encoded by orthologous genes in mouse cells.	Localized to the Vesicles in mouse cells.
Reliability scoreⁱ Overall gene reliability score for the subcellular location(s) of the encoded protein(s). A reliability score is set for all genes and indicates the level of reliability of the analyzed protein expression pattern based on available protein/RNA/gene characterization data. The reliability of the annotated protein expression data is also scored depending on similarity in immunostaining patterns and consistency with available experimental gene/protein characterization data in the UniProtKB/Swiss-Prot database. Read more	Supported
Antibodiesⁱ Antibodies used for this assay. Click on an antibody for more information.	HPA049374
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ASSAYSⁱ

RNA expression

Human cells

Custom data

Mouse cells

RNA EXPRESSION OVERVIEWⁱ

Organ

Origin

Category

Expression

Alphabetical

Cell lines ordered by organ of phenotypic resemblance.

HUMAN CELLSⁱ

Summaryⁱ

Localized to the endosomes & lysosomes.

Main locationⁱ

Endosomes (supported), Lysosomes (supported)


	Toggle channelsⁱ Buttons for turning on and off the different channels in the multi-color images. The intensity toggle shows the pixel intensity range in 16 different colors for the selected channel. The object toggle shows the computational segmentation of the cells used for further analysis in the HPA project. For samples where cell cycle dependency for the protein is suggested according to a correlation assay the predicted cell cycle position of each cell is displayed when using the object toggle.	Low High

Antibodyⁱ Antibody used for analysis. Clicking the antibody ID links to the antibody validation page.	Cell lineⁱ Cell line used for analysis. Read more about the cell lines in the Human Protein Atlas.	Cell line RNA Expression (nTPM)ⁱ RNA expression level in the cell line based on normalised RNA sequencing data. Genes with a value above 1 NX are considered to be expressed. Read more	Locationⁱ Observed subcellular location(s).
HPA049374	A-431	112.3	Endosomes
HPA049374	A-431	112.3	Lysosomes
HPA049374	MCF-7	58.9	Endosomes
HPA049374	MCF-7	58.9	Lysosomes
HPA049374	U2OS	44.6	Endosomes
HPA049374	U2OS	44.6	Lysosomes

CUSTOM DATAⁱ


	Toggle channelsⁱ Buttons for turning on and off the different channels in the multi-color images.

Thumbnailⁱ Minatures of all available images. The checkboxes can be used to select which three images to compare in the window above. All images are also clickable for an enlarged view. The selected image will appear in large size and miniature images with all other staining results for this gene will be listed at the top left of the image. The selected miniature image has an orange overlay.	Antibodyⁱ Antibody used for analysis. Clicking the antibody ID links to the antibody validation page.	Cell lineⁱ Cell line used for analysis. Read more about the cell lines in the Human Protein Atlas.	Assayⁱ Depending on the type of custom data the assay can be an immunofluorescent image, an immunofluorescent image stack, siRNA validation data or a time-lapse movie.	Descriptionⁱ Description of the assay used to generate the displayed custom data.
	HPA049374	U2OS	Image	SNX6 localizes to a subcompartment of endosomes, as it does not completely co-localize with the endosomal marker EEA1 on an endosome.


	Toggle channelsⁱ Buttons for turning on and off the different channels in the multi-color images.

Thumbnailⁱ Minatures of all available images. The checkboxes can be used to select which three images to compare in the window above. All images are also clickable for an enlarged view. The selected image will appear in large size and miniature images with all other staining results for this gene will be listed at the top left of the image. The selected miniature image has an orange overlay.	Antibodyⁱ Antibody used for analysis. Clicking the antibody ID links to the antibody validation page.	Cell lineⁱ Cell line used for analysis. Read more about the cell lines in the Human Protein Atlas.	Assayⁱ Depending on the type of custom data the assay can be an immunofluorescent image, an immunofluorescent image stack, siRNA validation data or a time-lapse movie.	Descriptionⁱ Description of the assay used to generate the displayed custom data.
	HPA049374	U2OS	Image	SNX6 localizes to retromers, as it co-localizes with the retromer marker VPS26A.


	Toggle channelsⁱ Buttons for turning on and off the different channels in the multi-color images.

Thumbnailⁱ Minatures of all available images. The checkboxes can be used to select which three images to compare in the window above. All images are also clickable for an enlarged view. The selected image will appear in large size and miniature images with all other staining results for this gene will be listed at the top left of the image. The selected miniature image has an orange overlay.	Antibodyⁱ Antibody used for analysis. Clicking the antibody ID links to the antibody validation page.	Cell lineⁱ Cell line used for analysis. Read more about the cell lines in the Human Protein Atlas.	Assayⁱ Depending on the type of custom data the assay can be an immunofluorescent image, an immunofluorescent image stack, siRNA validation data or a time-lapse movie.	Descriptionⁱ Description of the assay used to generate the displayed custom data.
	HPA049374	U2OS	Image	SNX6 localizes to lysosomes, as it partially co-localizes with the lysosomal marker LAMP1/CD107a.

MOUSE CELLSⁱ

Main locationⁱ

Vesicles

Mouse geneⁱ

ENSMUSG00000005656 (version 10)


	Toggle channelsⁱ Buttons for turning on and off the different channels in the multi-color images. The intensity toggle shows the pixel intensity range in 16 different colors for the selected channel. The object toggle shows the computational segmentation of the cells used for further analysis in the HPA project. For samples where cell cycle dependency for the protein is suggested according to a correlation assay the predicted cell cycle position of each cell is displayed when using the object toggle.	Low High

Thumbnailⁱ Minatures of all available images. The checkboxes can be used to select which three images to compare in the window above. All images are also clickable for an enlarged view. The selected image will appear in large size and miniature images with all other staining results for this gene will be listed at the top left of the image. The selected miniature image has an orange overlay.	Antibodyⁱ Antibody used for analysis. Clicking the antibody ID links to the antibody validation page.	Cell lineⁱ Cell line used for analysis. Read more about the cell lines in the Human Protein Atlas.	Locationⁱ Observed subcellular location(s).
	HPA049374	NIH 3T3	Vesicles