Cell atlas - ANKFY1 - The Human Protein Atlas

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Field

Pathway

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ANKFY1

SUMMARY

TISSUE

CELL

PATHOLOGY

BRAIN

BLOOD

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GENERAL INFORMATIONⁱ General description of the gene and encoded protein(s) using information from HGNC and Ensembl, as well as predictions made as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Gene name according to HGNC.	ANKFY1
Gene description	Ankyrin repeat and FYVE domain containing 1
Protein classⁱ Protein class(es) of the gene product according to selected gene lists. List of protein classes.	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 transcribed from this gene as defined by Ensembl.	4

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Summaryⁱ Show complete data for human cells assay. The location(s) are highlighted in the illustration on the right.	Mainly localized to the endosomes.
RNA cell specificityⁱ The cell lines in the Human Protein Atlas have been analyzed by RNA-seq to estimate the transcript abundance of each protein-coding gene. The RNA-seq data was then used to classify all genes according to their cell line-specific expression into one of six different categories, defined based on the total set of all NX values in all analyzed cell lines. Read more	Low cell line specificity
RNA cell distributionⁱ Classification of genes according to distribution of their RNA expression among the cell lines within the HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Protein evidenceⁱ Protein evidence scores are generated from several independent sources and are classified as evidence at i) protein level, ii) transcript level, iii) no evidence, or iv) not available.	Evidence at protein level
Main locationⁱ The main location is characterized by presence in all tested cell lines and/or increased intensity compared to other locations. It is highlighted in the illustration to the right. 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.	Localized to the Endosomes (enhanced)

DATA RELIABILITYⁱ Reliability score for the manual annotation of subcellular localization of the protein(s) and antibodies used for this assay. Read more
Reliability scoreⁱ 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	Enhanced
Antibodiesⁱ Antibodies used for this assay.	HPA024522, HPA065849
	SHOW MORE

ASSAYSⁱ

RNA expression

Human cells

Custom data

RNA EXPRESSION OVERVIEWⁱ

RNA cell line categoryⁱ
The cell lines in the Human Protein Atlas have been analyzed by RNA-seq to estimate the transcript abundance of each protein-coding gene. The RNA-seq data was then used to classify all genes according to their cell line-specific expression into one of six different categories, defined based on the total set of all NX values in all analyzed cell lines.

Read more
: Low cell line specificity

Organ

Origin

Category

Expression

Alphabetical

Cell lines ordered by organ of phenotypic resemblance.

HUMAN CELLSⁱ

Summaryⁱ

Mainly localized to the endosomes.

Main locationⁱ

Endosomes (enhanced)


	Toggle channelsⁱ Three different organelle probes are displayed as different channels in the multicolor images - nucleus stained in blue, microtubules in red and ER in yellow. The antibody staining targeting the protein of interest is shown in green. By using the "toggle channels"-buttons, the different channels can be turned on and off. 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 G1 S G2 M N/A

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 (NX)ⁱ Information about the gene expression level in the cell line using normalised RNA sequence data. Genes with a value above 1 NX are considered to be expressed. The HPA RNA-seq data is described more in detail in Assays & Annotation.	Locationⁱ Location(s) annotated in the corresponding cell line.
HPA024522	A549	25.7	Vesicles
HPA024522	U-2 OS	6.7	Vesicles
HPA065849	A549	25.7	Endosomes
HPA065849	HEK 293	16.6	Endosomes
HPA065849	U-2 OS	6.7	Endosomes

CUSTOM DATAⁱ


	Toggle channelsⁱ By using the "toggle channels"-buttons, the different channels can be turned on and off.

Thumbnailⁱ Representative images for the assay. Three images can be compared at the same time. To change which images to compare, use the checkboxes next to the images below. All images are 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.
	HPA065849	U-2 OS	Image	ANKFY1 localizes to endosomes, as it co-localizes with the endosomal marker EEA1.


	Toggle channelsⁱ By using the "toggle channels"-buttons, the different channels can be turned on and off.

Thumbnailⁱ Representative images for the assay. Three images can be compared at the same time. To change which images to compare, use the checkboxes next to the images below. All images are 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.
	HPA065849	U-2 OS	Image	ANKFY1 localizes to a subcompartment of retromers, as it does not completely co-localizes with the retromer marker VPS26A in a retromer.

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.