Gene Page:SCG2

Summary?
GeneID 7857
Symbol SCG2
Synonyms CHGC|EM66|SN|SgII
Description secretogranin II
Reference MIM:118930|HGNC:HGNC:10575|Ensembl:ENSG00000171951|HPRD:06762|Vega:OTTHUMG00000133166
Gene type protein-coding
Map location 2q35-q36
Pascal p-value 0.622
Sherlock p-value 0.9
Fetal beta -2.235
Support NEUROTROPHIN SIGNALING

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.00916
GSMA_IIE Genome scan meta-analysis (European-ancestry samples) Psr: 0.01016
Expression Meta-analysis of gene expression Pvalue: 2.005

Section I. Genetics and epigenetics annotation


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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
NLN 0.87 0.93
GFPT1 0.86 0.92
HISPPD1 0.86 0.93
PANK3 0.86 0.91
CASK 0.85 0.92
PANX1 0.85 0.92
RNF180 0.85 0.91
PRKAR2A 0.85 0.91
HSDL1 0.85 0.91
PLCXD2 0.84 0.92
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.31 -0.64 -0.83
HLA-F -0.64 -0.74
FXYD1 -0.63 -0.83
MT-CO2 -0.63 -0.84
AF347015.27 -0.62 -0.80
AF347015.33 -0.62 -0.81
TSC22D4 -0.62 -0.75
MT-CYB -0.61 -0.81
AF347015.8 -0.61 -0.83
C5orf53 -0.61 -0.69

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005125 cytokine activity IDA 14970115
GO:0005509 calcium ion binding IEA -
GO:0042056 chemoattractant activity IDA 9473216
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0000165 MAPKKK cascade IDA 14970115
GO:0001525 angiogenesis IDA 14970115
GO:0001937 negative regulation of endothelial cell proliferation TAS 9473216
GO:0001938 positive regulation of endothelial cell proliferation IDA 14970115
GO:0007242 intracellular signaling cascade IDA 9473216
GO:0009306 protein secretion TAS 2745426
GO:0006954 inflammatory response TAS 14970115
GO:0006928 cell motion IDA 9473216
GO:0043066 negative regulation of apoptosis IDA 14970115
GO:0050930 induction of positive chemotaxis IDA 9473216
GO:0048245 eosinophil chemotaxis IDA 9473216
GO:0043542 endothelial cell migration TAS 9473216
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005576 extracellular region IEA -
GO:0005615 extracellular space IDA 9473216

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
CORRE MULTIPLE MYELOMA UP 74 45 All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER BASAL VS MESENCHYMAL DN 50 36 All SZGR 2.0 genes in this pathway
SABATES COLORECTAL ADENOMA DN 291 176 All SZGR 2.0 genes in this pathway
KAN RESPONSE TO ARSENIC TRIOXIDE 123 80 All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX 795 478 All SZGR 2.0 genes in this pathway
RORIE TARGETS OF EWSR1 FLI1 FUSION DN 30 23 All SZGR 2.0 genes in this pathway
IGLESIAS E2F TARGETS UP 151 103 All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS DN 371 218 All SZGR 2.0 genes in this pathway
KAYO AGING MUSCLE UP 244 165 All SZGR 2.0 genes in this pathway
OSADA ASCL1 TARGETS UP 46 30 All SZGR 2.0 genes in this pathway
LABBE WNT3A TARGETS DN 97 53 All SZGR 2.0 genes in this pathway
HUNSBERGER EXERCISE REGULATED GENES 31 26 All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366 257 All SZGR 2.0 genes in this pathway
RUIZ TNC TARGETS UP 153 107 All SZGR 2.0 genes in this pathway
金所有DISORDERS OLIGODENDROCYTE NUMBER CORR UP 756 494 All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682 440 All SZGR 2.0 genes in this pathway
金所有DISORDERS CALB1 CORR UP 548 370 All SZGR 2.0 genes in this pathway
HOELZEL NF1 TARGETS UP 139 93 All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 UP 430 288 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-155 406 412 m8 hsa-miR-155 UUAAUGCUAAUCGUGAUAGGGG
miR-374 409 415 1A hsa-miR-374 UUAUAAUACAACCUGAUAAGUG
miR-495 358 364 1A hsa-miR-495brain AAACAAACAUGGUGCACUUCUUU
miR-543 472 478 1A hsa-miR-543 AAACAUUCGCGGUGCACUUCU
hsa-miR-543 AAACAUUCGCGGUGCACUUCU