Gene Page:PCDHA1

概括?
基因 56147
象征 PCDHA1
Synonyms PCDH-ALPHA1
Description protocadherin alpha 1
Reference MIM：606307|HGNC:HGNC:8663|Ensembl:ENSG00000204970|HPRD:07319|Vega:OTTHUMG00000163368
Gene type protein-coding
Map location 5q31
Pascal p-value 1.863E-6
eGene Cerebellar Hemisphere
Cerebellum

数据源中的基因
Gene set name Method of gene set Description Info
CV:PGC128 Genome-wide Association Study A multi-stage schizophrenia GWAS of up to 36,989 cases and 113,075 controls. Reported by the Schizophrenia Working Group of PGC. 128 independent associations spanning 108 loci
CV:PGCnp Genome-wide Association Study GWAS
GSMA_I Genome scan meta-analysis Psr: 0.0032
去_Annotation Mapping neuro-related keywords to Gene Ontology annotations 与神经相关的关键字的命中：1

第一节遗传学和表观遗传学注释

@CV:PGC128

SNP ID Chromosome Position Allele P 功能 Gene Up/Down Distance


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression of temporal and spatial changes (BrainSpan)

脚注：
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
SHMT1 0.76 0.65
PKMYT1 0.76 0.62
ARAF 0.74 0.63
SALL1 0.72 0.66
PRKD2 0.71 0.52
HMG20B 0.71 0.57
CHST14 0.71 0.52
NFKBIL2 0.71 0.59
RAD54L 0.71 0.48
SHKBP1 0.70 0.62
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
PPEF1 -0.27 -0.21
AF347015.31 -0.27 -0.17
AF347015.21 -0.25 -0.19
AF347015.27 -0.25 -0.17
CARD16 -0.25 -0.19
MT-CO2 -0.25 -0.16
GPR22 -0.24 -0.22
clec2b -0.24 -0.17
AF347015.8 -0.24 -0.15
OSTN -0.24 -0.20

Section III. Gene Ontology annotation

Molecular function 去term Evidence Neuro keywords PubMed ID
去:0005509 钙离子结合 IEA -
去:0005515 protein binding IEA -
生物过程 去term Evidence Neuro keywords PubMed ID
去:0007399 神经系统的发展 TAS neurite (GO term level: 5) 10380929
去:0007155 cell adhesion TAS 10380929
去:0007156 homophilic cell adhesion IEA -
Cellular component 去term Evidence Neuro keywords PubMed ID
去:0005576 extracellular region IEA -
去:0005886 plasma membrane IEA -
去:0005887 integral to plasma membrane TAS 10380929

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
MIKKELSEN MEF HCP WITH H3 UNMETHYLATED 228 119 该途径中的所有SZGR 2.0基因
MARTENS TRETINOIN RESPONSE UP 857 456 该途径中的所有SZGR 2.0基因

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-124/506 2194 2200 m8 hsa-miR-506 UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brain UAAGGCACGCGGUGAAUGCC
mir-15/16/195/424/497 1015 1022 1A,m8 hsa-miR-15abrain UAGCAGCACAUAAUGGUUUGUG
hsa-miR-16brain UAGCAGCACGUAAAUAUUGGCG
hsa-miR-15bbrain UAGCAGCACAUCAUGGUUUACA
hsa-miR-195SZ 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 caaagugcuuacugcagguagu
hsa-miR-20abrain UAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106a AAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZ UAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZ CAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519d CAAAGUGCCUCCCUUUAGAGUGU
hsa-miR-17-5p caaagugcuuacugcagguagu
hsa-miR-20abrain UAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106a AAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZ UAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZ CAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519d CAAAGUGCCUCCCUUUAGAGUGU
miR-181 1523 1530 1A,m8 hsa-miR-181abrain aacauucaacgcugucggugagu
hsa-miR-181bSZ AACAUUCAUUGCUGUCGGUGGG
hsa-miR-181cbrain AACAUUCAACCUGUCGGUGAGU
hsa-miR-181dbrain AACAUUCAUUGUUGUCGGUGGGUU
miR-185 204 211 1A,m8 hsa-miR-185brain UGGAGAGAAAGGCAGUUC
hsa-miR-185brain UGGAGAGAAAGGCAGUUC
miR-186 791 797 m8 hsa-miR-186 CAAAGAAUUCUCCUUUUGGGCUU
miR-19 796 803 1A,m8 hsa-miR-19a UGUGCAAAUCUAUGCAAAACUGA
hsa-miR-19b ugugcaaauccaugcaaaacuga
miR-218 1791 1798年 1A,m8 hsa-miR-218brain UUGUGCUUGAUCUAACCAUGU
miR-221/222 60 67 1A,m8 HSA-MIR-221brain AGCUACAUUGUCUGCUGGGUUUC
HSA-MIR-222brain AGCUACAUCUGGCUACUGGGUCUC
miR-23 2125 2131 1A hsa-miR-23abrain AUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrain AUCACAUUGCCAGGGAUUACC
hsa-miR-23abrain AUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrain AUCACAUUGCCAGGGAUUACC
miR-29 2355 2362 1A,m8 hsa-miR-29aSZ UAGCACCAUCUGAAAUCGGUU
hsa-miR-29bSZ UAGCACCAUUUGAAAUCAGUGUU
hsa-miR-29cSZ 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-329brain AACACACCUGGUUAACCUCUUU
miR-330 1833 1840 1A,m8 hsa-miR-330brain 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-495brain 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-93brain AAAGUGCUGUUCGUGCAGGUAG
hsa-miR-302a UAAGUGCUUCCAUGUUUUGGUGA
hsa-miR-302b UAAGUGCUUCCAUGUUUUAGUAG
hsa-miR-302c uaagugcuuccauguucagugg
hsa-miR-302d UAAGUGCUUCCAUGUUUGAGUGU
hsa-miR-372 AAAGUGCUGCGACAUUUGAGCGU
hsa-miR-373 GAAGUGCUUCGAUUUUGGGGUGU
hsa-miR-520e Aaagugcuuuuuugaggg
hsa-miR-520a AAAGUGCUUCCCUUUGGACUGU
hsa-miR-520b AAAGUGCUUCCUUUUAGAGGG
hsa-miR-520c AAAGUGCUUCCUUUUAGAGGGUU
hsa-miR-520d AAAGUGCUUCUCUUUGGUGGGUU