Gene Page:SEC31A
Summary?
| GeneID | 22872 |
| Symbol | SEC31A |
| Synonyms | ABP125|ABP130|HSPC275|HSPC334|SEC31L1 |
| Description | SEC31 homolog A, COPII coat complex component |
| Reference | MIM:610257|HGNC:HGNC:17052|Ensembl:ENSG00000138674|HPRD:15314|Vega:OTTHUMG00000130297 |
| Gene type | protein-coding |
| Map location | 4q21.22 |
| Pascal p-value | 0.051 |
| Sherlock p-value | 0.92 |
| Fetal beta | 0.381 |
| DMG | 1 (# studies) |
| Support | CompositeSet |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:Jaffe_2016 | Genome-wide DNA methylation analysis | This 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_2014 | Whole Exome Sequencing analysis | This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA. | |
| DNM:McCarthy_2014 | Whole Exome Sequencing analysis | Whole exome sequencing of 57 trios with sporadic or familial schizophrenia. |
Section I. Genetics and epigenetics annotation
DNM table
DNM table| Gene | Chromosome | Position | Ref | Alt | Transcript | AA change | Mutation type | Sift | CG46 | Trait | Study |
|---|---|---|---|---|---|---|---|---|---|---|---|
| SEC31A | chr4 | 83770052 | C | T | NM_016211 | p.P764S | missense SNV | C | B | Schizophrenia | DNM:McCarthy_2014 |
| SEC31A | chr4 | 83770051 | C | A | NM_016211 | p.P764Q | missense SNV | C | B | Schizophrenia | DNM:McCarthy_2014 |
| SEC31A | chr4 | 83770019 | G | T | NM_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 |
Schizophrenia | DNM:Fromer_2014 |
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg27182555 | 4 | 83821584 | SEC31A | 6.9E-8 | -0.015 | 1.68E-5 | DMG:Jaffe_2016 |
Section II. Transcriptome annotation
General gene expression (GTEx)
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
死神:胎儿(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 |
| AC008443.1 | 0.58 | 0.50 |
| TAS2R48 | 0.57 | 0.37 |
| NPIPL2 | 0.56 | 0.23 |
| TNFRSF25 | 0.56 | 0.67 |
| TAS2R49 | 0.55 | 0.47 |
| AC002472.7 | 0.55 | 0.35 |
| ARL17P1 | 0.55 | 0.15 |
| AP000347.4 | 0.54 | 0.56 |
| TAS2R4 | 0.54 | 0.36 |
| INE1 | 0.54 | 0.53 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson'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 name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| REACTOME MEMBRANE TRAFFICKING | 129 | 74 | All SZGR 2.0 genes in this pathway |
| REACTOME MHC CLASS II ANTIGEN PRESENTATION | 91 | 61 | All SZGR 2.0 genes in this pathway |
| REACTOME DIABETES PATHWAYS | 133 | 91 | All SZGR 2.0 genes in this pathway |
| REACTOME METABOLISM OF PROTEINS | 518 | 242 | All SZGR 2.0 genes in this pathway |
| REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S | 46 | 34 | All SZGR 2.0 genes in this pathway |
| REACTOME UNFOLDED PROTEIN RESPONSE | 80 | 51 | All SZGR 2.0 genes in this pathway |
| REACTOME POST TRANSLATIONAL PROTEIN MODIFICATION | 188 | 116 | All SZGR 2.0 genes in this pathway |
| REACTOME ASPARAGINE N LINKED GLYCOSYLATION | 81 | 54 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSPORT TO THE GOLGI AND SUBSEQUENT MODIFICATION | 33 | 24 | All SZGR 2.0 genes in this pathway |
| REACTOME IMMUNE SYSTEM | 933 | 616 | All SZGR 2.0 genes in this pathway |
| REACTOME适应性免疫系统 | 539 | 350 | All SZGR 2.0 genes in this pathway |
| REACTOME ANTIGEN PRESENTATION FOLDING ASSEMBLY AND PEPTIDE LOADING OF CLASS I MHC | 21 | 17 | All SZGR 2.0 genes in this pathway |
| REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION | 251 | 156 | All SZGR 2.0 genes in this pathway |
| NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN | 634 | 384 | All SZGR 2.0 genes in this pathway |
| DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP | 1382 | 904 | All SZGR 2.0 genes in this pathway |
| BERENJENO TRANSFORMED BY RHOA DN | 394 | 258 | All SZGR 2.0 genes in this pathway |
| LANG MYB FAMILY TARGETS | 29 | 16 | All SZGR 2.0 genes in this pathway |
| ABDULRAHMAN KIDNEY CANCER VHL DN | 14 | 9 | All SZGR 2.0 genes in this pathway |
| PUJANA XPRSS INT NETWORK | 168 | 103 | All SZGR 2.0 genes in this pathway |
| PUJANA BRCA CENTERED NETWORK | 117 | 72 | All SZGR 2.0 genes in this pathway |
| CAFFAREL RESPONSE TO THC UP | 33 | 20 | All SZGR 2.0 genes in this pathway |
| ROSS AML WITH PML RARA FUSION | 77 | 62 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE DN | 1237 | 837 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE INCIPIENT DN | 165 | 106 | All SZGR 2.0 genes in this pathway |
| CHNG MULTIPLE MYELOMA HYPERPLOID DN | 28 | 19 | All SZGR 2.0 genes in this pathway |
| STAMBOLSKY RESPONSE TO VITAMIN D3 UP | 84 | 48 | All SZGR 2.0 genes in this pathway |
| PILON KLF1 TARGETS DN | 1972 | 1213 | All SZGR 2.0 genes in this pathway |