Gene Page:COL23A1

Summary?
GeneID 91522
Symbol COL23A1
Synonyms -
Description collagen type XXIII alpha 1
Reference MIM:610043|HGNC:HGNC:22990|Ensembl:ENSG00000050767|HPRD:16733|Vega:OTTHUMG00000130890
Gene type protein-coding
Map location 5q35.3
Pascal p-value 0.381
Sherlock p-value 0.759
Fetal beta -0.503
DMG 1 (# studies)
eGene Cerebellar Hemisphere
Cerebellum
Myers' cis & trans
元

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.0276
Network Shortest path distance of core genes in the Human protein-protein interaction network Contribution to shortest path in PPI network: 0.1204

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg04591034 5 178017937 COL23A1 5.93E-8 3.251 0.003 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs752662 chr6 43637062 COL23A1 91522 0.11 trans
rs2236345 chr6 43648802 COL23A1 91522 0.2 trans
rs1334600 chr6 43649520 COL23A1 91522 0.14 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular function 去term Evidence Neuro keywords PubMed ID
去:0005515 protein binding 新闻学会 15231747
去:0005198 structural molecule activity IEA -
Cellular component 去term Evidence Neuro keywords PubMed ID
去:0016021 integral to membrane IEA -
去:0005886 plasma membrane IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
REACTOME EXTRACELLULAR MATRIX ORGANIZATION 87 42 All SZGR 2.0 genes in this pathway
REACTOME COLLAGEN FORMATION 58 31 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514 330 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 12HR UP 116 79 All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6 469 239 All SZGR 2.0 genes in this pathway
MCCABE HOXC6 TARGETS DN 21 15 All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2 491 319 All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME2 17 11 All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL DN 308 187 All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489 314 All SZGR 2.0 genes in this pathway
NABA胶原蛋白 44 26 All SZGR 2.0 genes in this pathway
NABA CORE MATRISOME 275 148 All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028 559 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-140 1063 1070 1A,m8 hsa-miR-140brain AGUGGUUUUACCCUAUGGUAG
miR-299-5p 1062 1068 1A hsa-miR-299-5p UGGUUUACCGUCCCACAUACAU
miR-93.hd/291-3p/294/295/302/372/373/520 517 523 m8 hsa-miR-93brain 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