Summary ?
GeneID22872
SymbolSEC31A
SynonymsABP125|ABP130|HSPC275|HSPC334|SEC31L1
DescriptionSEC31 homolog A, COPII coat complex component
ReferenceMIM:610257|HGNC:HGNC:17052|Ensembl:ENSG00000138674|HPRD:15314|Vega:OTTHUMG00000130297
Gene typeprotein-coding
Map location4q21.22
Pascal p-value0.051
Sherlock p-value0.92
Fetal beta0.381
DMG1 (# studies)
SupportCompositeSet

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
DNM:McCarthy_2014Whole Exome Sequencing analysisWhole exome sequencing of 57 trios with sporadic or familial schizophrenia.

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
SEC31Achr483770052CTNM_016211p.P764Smissense SNVCBSchizophreniaDNM:McCarthy_2014
SEC31Achr483770051CANM_016211p.P764Qmissense SNVCBSchizophreniaDNM:McCarthy_2014
SEC31Achr483770019GTNM_001077206
NM_001077207
NM_001077208
NM_001191049
NM_014933
NM_016211
p.814P>T
p.814P>T
p.814P>T
p.809P>T
p.814P>T
p.775P>T
missense
missense
missense
missense
missense
missense
SchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg27182555483821584SEC31A6.9E-8-0.0151.68E-5DMG:Jaffe_2016


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
GenePearson's Correlation Spearman's Correlation
AC008443.10.580.50
TAS2R480.570.37
NPIPL20.560.23
TNFRSF250.560.67
TAS2R490.550.47
AC002472.70.550.35
ARL17P10.550.15
AP000347.40.540.56
TAS2R40.540.36
INE10.540.53
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MRPL51-0.28-0.38
UQCRB-0.27-0.44
LDHB-0.27-0.31
C14orf156-0.27-0.38
C1orf151-0.26-0.31
RP4-604K5.1-0.26-0.38
MRPL19-0.26-0.34
BAG1-0.26-0.38
SEC62-0.26-0.38
CD63-0.26-0.35

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
REACTOME MEMBRANE TRAFFICKING 12974All SZGR 2.0 genes in this pathway
REACTOME MHC CLASS II ANTIGEN PRESENTATION 9161All SZGR 2.0 genes in this pathway
REACTOME DIABETES PATHWAYS 13391All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF PROTEINS 518242All SZGR 2.0 genes in this pathway
REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S 4634All SZGR 2.0 genes in this pathway
REACTOME UNFOLDED PROTEIN RESPONSE 8051All SZGR 2.0 genes in this pathway
REACTOME POST TRANSLATIONAL PROTEIN MODIFICATION 188116All SZGR 2.0 genes in this pathway
REACTOME ASPARAGINE N LINKED GLYCOSYLATION 8154All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT TO THE GOLGI AND SUBSEQUENT MODIFICATION 3324All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM 933616All SZGR 2.0 genes in this pathway
REACTOME ADAPTIVE IMMUNE SYSTEM 539350All SZGR 2.0 genes in this pathway
REACTOME ANTIGEN PRESENTATION FOLDING ASSEMBLY AND PEPTIDE LOADING OF CLASS I MHC 2117All SZGR 2.0 genes in this pathway
REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION 251156All SZGR 2.0 genes in this pathway
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN 634384All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382904All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN 394258All SZGR 2.0 genes in this pathway
LANG MYB FAMILY TARGETS 2916All SZGR 2.0 genes in this pathway
ABDULRAHMAN KIDNEY CANCER VHL DN 149All SZGR 2.0 genes in this pathway
PUJANA XPRSS INT NETWORK 168103All SZGR 2.0 genes in this pathway
PUJANA BRCA CENTERED NETWORK 11772All SZGR 2.0 genes in this pathway
CAFFAREL RESPONSE TO THC UP 3320All SZGR 2.0 genes in this pathway
ROSS AML WITH PML RARA FUSION 7762All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT DN 165106All SZGR 2.0 genes in this pathway
CHNG MULTIPLE MYELOMA HYPERPLOID DN 2819All SZGR 2.0 genes in this pathway
STAMBOLSKY RESPONSE TO VITAMIN D3 UP 8448All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 19721213All SZGR 2.0 genes in this pathway