Expression of PCDHB6 in cancer - Summary - The Human Protein Atlas

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PCDHB6

TISSUE

CELL

PATHOLOGY

PATHOLOGY ATLAS

GENE/PROTEIN

Antibody validation

Dictionary


Level of antibody staining/expression
	High Medium Low Not detected

GENERAL INFORMATION
Gene name	PCDHB6
Gene description	Protocadherin beta 6
Protein class	Predicted membrane proteins
Predicted localization	Membrane
Number of transcripts	2
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HUMAN PROTEIN ATLAS INFORMATION

RNA category

TCGA (cancer tissue):	Mixed
HPA (cell line):	Cell line enhanced (EFO-21, SH-SY5Y, U-2197, WM-115)
HPA (normal tissue):	Tissue enhanced (parathyroid gland)

Protein evidence

Evidence at transcript level

Protein expression
normal tissue

Estimation of protein expression could not be performed. View primary data.

ANTIBODY IHC RELIABILITY
Data reliability description	RNA-based expert annotation gave inconclusive results. Pending external verification. Antibody staining not consistent with RNA expression data.
Reliability score	Uncertain based on 1 antibody. HPA029566
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PROGNOSTIC SUMMARY
Prognostic marker in renal cancer (unfavourable).
Renal cancer p<0.001 Show all

RNA EXPRESSION OVERVIEW
TCGA dataset RNA cancer category: Mixed

PROTEIN EXPRESSION

Colorectal cancer

Prostate cancer

STAINING SUMMARY

HPA029566

GENE INFORMATION
Gene name	PCDHB6 (HGNC Symbol)
Synonyms	PCDH-BETA6
Description	Protocadherin beta 6 (HGNC Symbol)
Entrez gene summary	This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. Unlike the alpha and gamma clusters, the transcripts from these genes do not share common 3' exons. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins that most likely play a critical role in the establishment and function of specific cell-cell neural connections. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]
Chromosome	5
Cytoband	q31.3
Chromosome location (bp)	141150022 - 141153287
Protein evidence	Evidence at transcript level (all genes)
Ensembl	ENSG00000113211 (version 83.38)
Entrez gene	56130
UniProt	Q9Y5E3 (UniProt - Evidence at transcript level)
neXtProt	NX_Q9Y5E3
Antibodypedia	PCDHB6 antibodies

PROTEIN BROWSER

PCDHB6-001	PCDHB6-002

PROTEIN INFORMATION
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
PCDHB6-001 ENSP00000231136 ENST00000231136	Q9Y5E3 [Direct mapping] Protocadherin beta-6 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Show all	GO:0005509 [calcium ion binding] GO:0005886 [plasma membrane] GO:0005887 [integral component of plasma membrane] GO:0007155 [cell adhesion] GO:0007156 [homophilic cell adhesion via plasma membrane adhesion molecules] GO:0007268 [synaptic transmission] GO:0007399 [nervous system development] GO:0007416 [synapse assembly] GO:0016020 [membrane] GO:0016021 [integral component of membrane] GO:0016339 [calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules] Show all	794 aa 87.3 kDa	Yes	1
PCDHB6-002 ENSP00000485034 ENST00000622991	A0A096LNH7 [Direct mapping] Protocadherin beta-6 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 1TM proteins predicted by MDM Show all	GO:0005509 [calcium ion binding] GO:0005886 [plasma membrane] GO:0007155 [cell adhesion] GO:0007156 [homophilic cell adhesion via plasma membrane adhesion molecules] GO:0016020 [membrane] GO:0016021 [integral component of membrane] Show all	658 aa 71.8 kDa	No	1

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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