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Association Linkage Expression Literature GO_Annotation Gene Network miRNA Targets

Gene Ranking Integration

Association Linkage Expression Literature GO_Annotation Gene Network miRNA Targets Datasets Gene Ranking

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Gene Page: PCDHA4

Summary

GeneID

56144

Symbol

PCDHA4

Synonyms

CNR1|CNRN1|CRNR1|MGC138307|MGC142169|PCDH-ALPHA4

Description

protocadherin alpha 4

Locus tag

Gene type

protein-coding

Map location

5q31

Gene in Data Sources

Gene set name

Method of gene set

Evidence

Info

GSMA_I

genome scan meta-analysis

Psr: 0.0032

GO_Annotation

Mapping neuro-related keywords to Gene Ontology annotations

Hits with neuro-related keywords: 1

Network

Shortest path distance of core genes in the Human protein-protein interaction network

Contribution to shortest path in PPI network: 3.645

General Gene Expression (microarray) ?

Gene Expression in Brain Regions (new)

Top co-expressed genes in Brain Regions (new)

Gene

Pearson's Correlation

Spearman's Correlation

Top 10 positively co-expressed genes

NDUFAF4

0.37

0.36

HTR2C

0.37

0.33

ITGB1BP1

0.36

0.37

PPP1R7

0.36

0.30

CCDC110

0.36

0.33

PRKAG2

0.36

0.35

SLC25A14

0.36

FUNDC1

0.36

0.30

SEC11C

0.35

0.34

CALM2

0.35

0.34

Top 10 negatively co-expressed genes

KLF4

-0.22

-0.25

KLF2

-0.22

-0.23

MYLK2

-0.22

-0.20

SLC38A5

-0.21

-0.19

CXCL2

-0.21

-0.19

SORBS3

-0.21

-0.20

CLDN5

-0.21

-0.23

NDUFA4L2

-0.21

-0.19

AF347015.18

-0.20

-0.11

SOX17

-0.20

-0.16

Gene Ontology

Molecular function

GO term

Evidence

Neuro keywords

PubMed ID

GO:0005509

calcium ion binding

IEA

GO:0005515

protein binding

IEA

Biological process

GO term

Evidence

Neuro keywords

PubMed ID

GO:0007399

nervous system development

TAS

neurite (GO term level: 5)

10380929

GO:0007155

cell adhesion

TAS

10380929

GO:0007156

homophilic cell adhesion

IEA

Cellular component

GO term

Evidence

Neuro keywords

PubMed ID

GO:0005886

plasma membrane

IEA

GO:0005887

integral to plasma membrane

TAS

10380929

Protein-protein Interactions

Shown by network

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
APLP1	APLP	amyloid beta (A4) precursor-like protein 1	Two-hybrid	BioGRID	16169070
C14orf1	ERG28 \| NET51	chromosome 14 open reading frame 1	Two-hybrid	BioGRID	16169070
C1orf103	FLJ11269 \| RIF1 \| RP11-96K19.1	chromosome 1 open reading frame 103	Two-hybrid	BioGRID	16169070
C7orf64	DKFZP564O0523 \| DKFZp686D1651 \| HSPC304	chromosome 7 open reading frame 64	Two-hybrid	BioGRID	16169070
CCDC90B	MDS011 \| MDS025 \| MGC104239	coiled-coil domain containing 90B	Two-hybrid	BioGRID	16169070
EEF1A1	CCS-3 \| CCS3 \| EEF-1 \| EEF1A \| EF-Tu \| EF1A \| FLJ25721 \| GRAF-1EF \| HNGC:16303 \| LENG7 \| MGC102687 \| MGC131894 \| MGC16224 \| PTI1 \| eEF1A-1	eukaryotic translation elongation factor 1 alpha 1	Two-hybrid	BioGRID	16169070
GAPDH	G3PD \| GAPD \| MGC88685	glyceraldehyde-3-phosphate dehydrogenase	Two-hybrid	BioGRID	16169070
GDF9	-	growth differentiation factor 9	Two-hybrid	BioGRID	16169070
IGSF21	FLJ41177 \| MGC15730	immunoglobin superfamily, member 21	Two-hybrid	BioGRID	16169070
RELN	PRO1598 \| RL	reelin	-	HPRD	10612399
SETDB1	ESET \| KG1T \| KIAA0067 \| KMT1E	SET domain, bifurcated 1	Two-hybrid	BioGRID	16169070
TLE1	ESG \| ESG1 \| GRG1	transducin-like enhancer of split 1 (E(sp1) homolog, Drosophila)	Two-hybrid	BioGRID	16169070
TP53	FLJ92943 \| LFS1 \| TRP53 \| p53	tumor protein p53	Two-hybrid	BioGRID	16169070
UNC119	HRG4	unc-119 homolog (C. elegans)	Two-hybrid	BioGRID	16169070

Pathway annotation

miRNA Targets ?

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-124/506	2194	2200	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	2194	2200	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-15/16/195/424/497	1015	1022	1A,m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-153	841	847	1A	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-17-5p/20/93.mr/106/519.d	2259	2265	m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
				hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-181	1523	1530	1A,m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-185	204	211	1A,m8	hsa-miR-185^brain	UGGAGAGAAAGGCAGUUC
miR-185	204	211	1A,m8	hsa-miR-185^brain	UGGAGAGAAAGGCAGUUC
miR-186	791	797	m8	hsa-miR-186	CAAAGAAUUCUCCUUUUGGGCUU
miR-19	796	803	1A,m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	796	803	1A,m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-218	1791	1798	1A,m8	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-221/222	60	67	1A,m8	hsa-miR-221^brain	AGCUACAUUGUCUGCUGGGUUUC
miR-221/222	60	67	1A,m8	hsa-miR-222^brain	AGCUACAUCUGGCUACUGGGUCUC
miR-23	2125	2131	1A	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
				hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
				hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
				hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-29	2355	2362	1A,m8	hsa-miR-29a^SZ	UAGCACCAUCUGAAAUCGGUU
				hsa-miR-29b^SZ	UAGCACCAUUUGAAAUCAGUGUU
				hsa-miR-29c^SZ	UAGCACCAUUUGAAAUCGGU
miR-320	1083	1090	1A,m8	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
				hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
				hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-329	2071	2078	1A,m8	hsa-miR-329^brain	AACACACCUGGUUAACCUCUUU
miR-330	1833	1840	1A,m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-362	2320	2326	1A	hsa-miR-362	AAUCCUUGGAACCUAGGUGUGAGU
miR-369-3p	1057	1064	1A,m8	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-448	841	847	1A	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-495	883	889	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-503	1016	1022	1A	hsa-miR-503	UAGCAGCGGGAACAGUUCUGCAG
miR-505	1520	1526	1A	hsa-miR-505	GUCAACACUUGCUGGUUUCCUC
miR-539	1257	1263	1A	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU
miR-93.hd/291-3p/294/295/302/372/373/520	2258	2264	m8	hsa-miR-93^brain	AAAGUGCUGUUCGUGCAGGUAG
				hsa-miR-302a	UAAGUGCUUCCAUGUUUUGGUGA
				hsa-miR-302b	UAAGUGCUUCCAUGUUUUAGUAG
				hsa-miR-302c	UAAGUGCUUCCAUGUUUCAGUGG
				hsa-miR-302d	UAAGUGCUUCCAUGUUUGAGUGU
				hsa-miR-372	AAAGUGCUGCGACAUUUGAGCGU
				hsa-miR-373	GAAGUGCUUCGAUUUUGGGGUGU
				hsa-miR-520e	AAAGUGCUUCCUUUUUGAGGG
				hsa-miR-520a	AAAGUGCUUCCCUUUGGACUGU
				hsa-miR-520b	AAAGUGCUUCCUUUUAGAGGG
				hsa-miR-520c	AAAGUGCUUCCUUUUAGAGGGUU
				hsa-miR-520d	AAAGUGCUUCUCUUUGGUGGGUU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.