Gene Page: FAM21A
Summary ?
| GeneID | 387680 |
| Symbol | FAM21A |
| Synonyms | FAM21B|bA56A21.1|bA98I6.1 |
| Description | family with sequence similarity 21 member A |
| Reference | HGNC:HGNC:23416|Ensembl:ENSG00000099290|HPRD:17364|Vega:OTTHUMG00000018225 |
| Gene type | protein-coding |
| Map location | 10q11.23 |
| Pascal p-value | 0.083 |
| Fetal beta | -0.378 |
| DMG | 1 (# studies) |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Frontal Cortex BA9 Hippocampus Hypothalamus Nucleus accumbens basal ganglia Putamen basal ganglia Meta |
| Support | Darnell FMRP targets |
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 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg09137423 | 10 | 51827642 | FAM21A | 2.27E-10 | -0.022 | 5.98E-7 | DMG:Jaffe_2016 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs12359773 | 10 | 51796379 | FAM21A | ENSG00000099290.11 | 4.473E-7 | 0 | -31269 | gtex_brain_ba24 |
| rs11003438 | 10 | 51796962 | FAM21A | ENSG00000099290.11 | 3.142E-8 | 0 | -30686 | gtex_brain_ba24 |
| rs4042937 | 10 | 51797239 | FAM21A | ENSG00000099290.11 | 1.638E-8 | 0 | -30409 | gtex_brain_ba24 |
| rs61848287 | 10 | 51798031 | FAM21A | ENSG00000099290.11 | 2.474E-8 | 0 | -29617 | gtex_brain_ba24 |
| rs7919882 | 10 | 51798336 | FAM21A | ENSG00000099290.11 | 1.247E-8 | 0 | -29312 | gtex_brain_ba24 |
| rs7909757 | 10 | 51799321 | FAM21A | ENSG00000099290.11 | 2.089E-8 | 0 | -28327 | gtex_brain_ba24 |
| rs7081554 | 10 | 51801386 | FAM21A | ENSG00000099290.11 | 1.519E-9 | 0 | -26262 | gtex_brain_ba24 |
| rs11003463 | 10 | 51801793 | FAM21A | ENSG00000099290.11 | 7.453E-10 | 0 | -25855 | gtex_brain_ba24 |
| rs4576765 | 10 | 51801913 | FAM21A | ENSG00000099290.11 | 6.762E-11 | 0 | -25735 | gtex_brain_ba24 |
| rs2338049 | 10 | 51801925 | FAM21A | ENSG00000099290.11 | 6.573E-11 | 0 | -25723 | gtex_brain_ba24 |
| rs2338050 | 10 | 51804949 | FAM21A | ENSG00000099290.11 | 7.578E-12 | 0 | -22699 | gtex_brain_ba24 |
| rs11003493 | 10 | 51805807 | FAM21A | ENSG00000099290.11 | 7.489E-10 | 0 | -21841 | gtex_brain_ba24 |
| rs11003495 | 10 | 51806275 | FAM21A | ENSG00000099290.11 | 4.581E-12 | 0 | -21373 | gtex_brain_ba24 |
| rs10762956 | 10 | 51806645 | FAM21A | ENSG00000099290.11 | 6.662E-13 | 0 | -21003 | gtex_brain_ba24 |
| rs10824973 | 10 | 51807210 | FAM21A | ENSG00000099290.11 | 4.512E-12 | 0 | -20438 | gtex_brain_ba24 |
| rs10824974 | 10 | 51807214 | FAM21A | ENSG00000099290.11 | 4.68E-12 | 0 | -20434 | gtex_brain_ba24 |
| rs7905112 | 10 | 51807402 | FAM21A | ENSG00000099290.11 | 1.009E-12 | 0 | -20246 | gtex_brain_ba24 |
| rs11327043 | 10 | 51807447 | FAM21A | ENSG00000099290.11 | 4.942E-12 | 0 | -20201 | gtex_brain_ba24 |
| rs143254339 | 10 | 51807458 | FAM21A | ENSG00000099290.11 | 1.009E-11 | 0 | -20190 | gtex_brain_ba24 |
| rs12146177 | 10 | 51807814 | FAM21A | ENSG00000099290.11 | 2.182E-11 | 0 | -19834 | gtex_brain_ba24 |
| rs11003511 | 10 | 51808564 | FAM21A | ENSG00000099290.11 | 1.598E-8 | 0 | -19084 | gtex_brain_ba24 |
| rs59363341 | 10 | 51810982 | FAM21A | ENSG00000099290.11 | 2.455E-11 | 0 | -16666 | gtex_brain_ba24 |
| rs4372391 | 10 | 51812419 | FAM21A | ENSG00000099290.11 | 3.411E-7 | 0 | -15229 | gtex_brain_ba24 |
| rs4245022 | 10 | 51812433 | FAM21A | ENSG00000099290.11 | 7.973E-9 | 0 | -15215 | gtex_brain_ba24 |
| rs4245023 | 10 | 51812441 | FAM21A | ENSG00000099290.11 | 3.288E-9 | 0 | -15207 | gtex_brain_ba24 |
| rs7083613 | 10 | 51813097 | FAM21A | ENSG00000099290.11 | 2.494E-9 | 0 | -14551 | gtex_brain_ba24 |
| rs4935065 | 10 | 51814612 | FAM21A | ENSG00000099290.11 | 1.618E-10 | 0 | -13036 | gtex_brain_ba24 |
| rs10825005 | 10 | 51815364 | FAM21A | ENSG00000099290.11 | 2.169E-12 | 0 | -12284 | gtex_brain_ba24 |
| rs28671507 | 10 | 51820916 | FAM21A | ENSG00000099290.11 | 9.401E-12 | 0 | -6732 | gtex_brain_ba24 |
| rs10825022 | 10 | 51823059 | FAM21A | ENSG00000099290.11 | 3.652E-12 | 0 | -4589 | gtex_brain_ba24 |
| rs117701460 | 10 | 51823895 | FAM21A | ENSG00000099290.11 | 1.024E-6 | 0 | -3753 | gtex_brain_ba24 |
| rs7077437 | 10 | 51824424 | FAM21A | ENSG00000099290.11 | 3.232E-12 | 0 | -3224 | gtex_brain_ba24 |
| rs28698433 | 10 | 51827408 | FAM21A | ENSG00000099290.11 | 2.227E-8 | 0 | -240 | gtex_brain_ba24 |
| rs7092476 | 10 | 52023306 | FAM21A | ENSG00000099290.11 | 2.342E-6 | 0 | 195658 | gtex_brain_ba24 |
| rs2574942 | 10 | 52024256 | FAM21A | ENSG00000099290.11 | 1.162E-6 | 0 | 196608 | gtex_brain_ba24 |
| rs10824926 | 10 | 51795690 | FAM21A | ENSG00000099290.11 | 1.652E-7 | 0 | -31958 | gtex_brain_putamen_basal |
| rs12359773 | 10 | 51796379 | FAM21A | ENSG00000099290.11 | 2.719E-9 | 0 | -31269 | gtex_brain_putamen_basal |
| rs11003438 | 10 | 51796962 | FAM21A | ENSG00000099290.11 | 3.496E-9 | 0 | -30686 | gtex_brain_putamen_basal |
| rs4042937 | 10 | 51797239 | FAM21A | ENSG00000099290.11 | 4.86E-9 | 0 | -30409 | gtex_brain_putamen_basal |
| rs61848287 | 10 | 51798031 | FAM21A | ENSG00000099290.11 | 3.844E-9 | 0 | -29617 | gtex_brain_putamen_basal |
| rs7919882 | 10 | 51798336 | FAM21A | ENSG00000099290.11 | 2.21E-8 | 0 | -29312 | gtex_brain_putamen_basal |
| rs7909757 | 10 | 51799321 | FAM21A | ENSG00000099290.11 | 5.47E-9 | 0 | -28327 | gtex_brain_putamen_basal |
| rs7081554 | 10 | 51801386 | FAM21A | ENSG00000099290.11 | 5.49E-9 | 0 | -26262 | gtex_brain_putamen_basal |
| rs11003463 | 10 | 51801793 | FAM21A | ENSG00000099290.11 | 3.654E-9 | 0 | -25855 | gtex_brain_putamen_basal |
| rs4576765 | 10 | 51801913 | FAM21A | ENSG00000099290.11 | 2.207E-9 | 0 | -25735 | gtex_brain_putamen_basal |
| rs2338049 | 10 | 51801925 | FAM21A | ENSG00000099290.11 | 2.58E-8 | 0 | -25723 | gtex_brain_putamen_basal |
| rs2338050 | 10 | 51804949 | FAM21A | ENSG00000099290.11 | 1.255E-10 | 0 | -22699 | gtex_brain_putamen_basal |
| rs11003493 | 10 | 51805807 | FAM21A | ENSG00000099290.11 | 1.497E-9 | 0 | -21841 | gtex_brain_putamen_basal |
| rs11003495 | 10 | 51806275 | FAM21A | ENSG00000099290.11 | 6.082E-11 | 0 | -21373 | gtex_brain_putamen_basal |
| rs10762956 | 10 | 51806645 | FAM21A | ENSG00000099290.11 | 3.742E-10 | 0 | -21003 | gtex_brain_putamen_basal |
| rs10824973 | 10 | 51807210 | FAM21A | ENSG00000099290.11 | 1.633E-10 | 0 | -20438 | gtex_brain_putamen_basal |
| rs10824974 | 10 | 51807214 | FAM21A | ENSG00000099290.11 | 1.606E-10 | 0 | -20434 | gtex_brain_putamen_basal |
| rs7905112 | 10 | 51807402 | FAM21A | ENSG00000099290.11 | 7.56E-11 | 0 | -20246 | gtex_brain_putamen_basal |
| rs11327043 | 10 | 51807447 | FAM21A | ENSG00000099290.11 | 6.715E-11 | 0 | -20201 | gtex_brain_putamen_basal |
| rs143254339 | 10 | 51807458 | FAM21A | ENSG00000099290.11 | 6.663E-11 | 0 | -20190 | gtex_brain_putamen_basal |
| rs12146177 | 10 | 51807814 | FAM21A | ENSG00000099290.11 | 4E-10 | 0 | -19834 | gtex_brain_putamen_basal |
| rs11003511 | 10 | 51808564 | FAM21A | ENSG00000099290.11 | 5.206E-10 | 0 | -19084 | gtex_brain_putamen_basal |
| rs59363341 | 10 | 51810982 | FAM21A | ENSG00000099290.11 | 7.961E-10 | 0 | -16666 | gtex_brain_putamen_basal |
| rs4372391 | 10 | 51812419 | FAM21A | ENSG00000099290.11 | 2.319E-8 | 0 | -15229 | gtex_brain_putamen_basal |
| rs4245022 | 10 | 51812433 | FAM21A | ENSG00000099290.11 | 2.902E-10 | 0 | -15215 | gtex_brain_putamen_basal |
| rs4245023 | 10 | 51812441 | FAM21A | ENSG00000099290.11 | 5.81E-11 | 0 | -15207 | gtex_brain_putamen_basal |
| rs7083613 | 10 | 51813097 | FAM21A | ENSG00000099290.11 | 1.221E-8 | 0 | -14551 | gtex_brain_putamen_basal |
| rs4935065 | 10 | 51814612 | FAM21A | ENSG00000099290.11 | 2.147E-10 | 0 | -13036 | gtex_brain_putamen_basal |
| rs10825005 | 10 | 51815364 | FAM21A | ENSG00000099290.11 | 7.738E-11 | 0 | -12284 | gtex_brain_putamen_basal |
| rs3964886 | 10 | 51819952 | FAM21A | ENSG00000099290.11 | 6.601E-6 | 0 | -7696 | gtex_brain_putamen_basal |
| rs28671507 | 10 | 51820916 | FAM21A | ENSG00000099290.11 | 1.51E-9 | 0 | -6732 | gtex_brain_putamen_basal |
| rs10825022 | 10 | 51823059 | FAM21A | ENSG00000099290.11 | 8.159E-10 | 0 | -4589 | gtex_brain_putamen_basal |
| rs7077437 | 10 | 51824424 | FAM21A | ENSG00000099290.11 | 5.218E-10 | 0 | -3224 | gtex_brain_putamen_basal |
| rs28698433 | 10 | 51827408 | FAM21A | ENSG00000099290.11 | 6.811E-8 | 0 | -240 | gtex_brain_putamen_basal |
| rs2842127 | 10 | 52021801 | FAM21A | ENSG00000099290.11 | 3.013E-6 | 0 | 194153 | gtex_brain_putamen_basal |
| rs2574937 | 10 | 52022451 | FAM21A | ENSG00000099290.11 | 4.245E-6 | 0 | 194803 | gtex_brain_putamen_basal |
| rs2574938 | 10 | 52022691 | FAM21A | ENSG00000099290.11 | 3.376E-6 | 0 | 195043 | gtex_brain_putamen_basal |
| rs6481158 | 10 | 52023131 | FAM21A | ENSG00000099290.11 | 2.952E-6 | 0 | 195483 | gtex_brain_putamen_basal |
| rs2574942 | 10 | 52024256 | FAM21A | ENSG00000099290.11 | 1.586E-6 | 0 | 196608 | gtex_brain_putamen_basal |
| rs10740617 | 10 | 52027609 | FAM21A | ENSG00000099290.11 | 2.915E-6 | 0 | 199961 | gtex_brain_putamen_basal |
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
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 V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| WANG CISPLATIN RESPONSE AND XPC DN | 228 | 146 | All SZGR 2.0 genes in this pathway |
| WANG RESPONSE TO GSK3 INHIBITOR SB216763 UP | 397 | 206 | All SZGR 2.0 genes in this pathway |