Cell line - COL6A6 - The Human Protein Atlas

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COL6A6

SUMMARY

TISSUE

BRAIN

SINGLE CELL

TISSUE CELL

PATHOLOGY

IMMUNE

BLOOD

SUBCELL

CELL LINE

METABOLIC

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.	COL6A6
Gene descriptionⁱ Full gene name according to HGNC.	Collagen type VI alpha 6 chain
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,Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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	NES - Nervous system development (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 enriched (SuSa)
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 single
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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data. Read more	Protein predicted to be secreted

CELL LINESⁱ

Organ

Expression

Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

COL6A6 is part of cluster 12 NES - Nervous system development with confidenceⁱ 1
420 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
NTS	Neurotensin	0.9128	12
FOXE3	Forkhead box E3	0.9006	12
ATP12A	ATPase H+/K+ transporting non-gastric alpha2 subunit	0.8921	12
PLSCR5	Phospholipid scramblase family member 5	0.8893	12
DPPA5	Developmental pluripotency associated 5	0.8885	12
LGALS13	Galectin 13	0.8879	12
MAP1LC3C	Microtubule associated protein 1 light chain 3 gamma	0.8822	12
WNT9B	Wnt family member 9B	0.8808	12
POU5F1	POU class 5 homeobox 1	0.8773	12
H2AP	H2A.P histone	0.8733	12
FXYD4	FXYD domain containing ion transport regulator 4	0.8731	12
MRGPRX1	MAS related GPR family member X1	0.8664	12
GJD2	Gap junction protein delta 2	0.8488	12
PRR9	Proline rich 9	0.8344	12
ERVFRD-1	Endogenous retrovirus group FRD member 1, envelope	0.8320	12

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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