Summary ?
GeneID2334
SymbolAFF2
SynonymsFMR2|FMR2P|FRAXE|MRX2|OX19
DescriptionAF4/FMR2 family member 2
ReferenceMIM:300806|HGNC:HGNC:3776|Ensembl:ENSG00000155966|HPRD:02397|Vega:OTTHUMG00000022613
Gene typeprotein-coding
Map locationXq28
Sherlock p-value0.137
Fetal beta2.166
eGeneMyers' cis & trans
SupportPotential synaptic genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 1 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs7584986chr2184111432AFF223340.05trans
rs16955618chr1529937543AFF223341.195E-4trans
rs1041786chr2122617710AFF223340.01trans

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
HCK0.830.71
CD680.810.72
CD140.810.75
ITGB20.800.74
TREM20.790.75
FCGR1A0.760.64
VSIG40.760.68
NCKAP1L0.760.67
LAPTM50.750.76
PGDS0.740.74
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AC010300.1-0.30-0.41
AC005921.3-0.26-0.39
AF347015.18-0.26-0.21
AP000769.2-0.26-0.35
AF347015.26-0.26-0.21
MALAT1-0.26-0.33
AC016705.1-0.26-0.31
C10orf108-0.25-0.30
ERVWE1-0.25-0.31
MICALL2-0.24-0.23

Section III. Gene Ontology annotation

Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007420brain developmentTASBrain (GO term level: 7)8673086 
GO:0007611learning or memoryIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusIDA18029348 
GO:0005737cytoplasmIDA18029348 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA UP 177110All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442892All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779480All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038678All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062725All SZGR 2.0 genes in this pathway
ROSS AML WITH PML RARA FUSION 7762All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 6HR UP 7148All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543317All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN 593372All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN 591366All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 12 3020All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 1HR UP 6144All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745475All SZGR 2.0 genes in this pathway
RATTENBACHER BOUND BY CELF1 467251All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-103/107449945061A,m8hsa-miR-103brainAGCAGCAUUGUACAGGGCUAUGA
hsa-miR-107brainAGCAGCAUUGUACAGGGCUAUCA
miR-140290729131Ahsa-miR-140brainAGUGGUUUUACCCUAUGGUAG
miR-142-3p1631701A,m8hsa-miR-142-3pUGUAGUGUUUCCUACUUUAUGGA
miR-14535863592m8hsa-miR-145GUCCAGUUUUCCCAGGAAUCCCUU
miR-149174017461Ahsa-miR-149brainUCUGGCUCCGUGUCUUCACUCC
hsa-miR-149brainUCUGGCUCCGUGUCUUCACUCC
miR-150357535811Ahsa-miR-150UCUCCCAACCCUUGUACCAGUG
miR-188269627021Ahsa-miR-188CAUCCCUUGCAUGGUGGAGGGU
miR-21415301536m8hsa-miR-214brainACAGCAGGCACAGACAGGCAG
miR-218563156371Ahsa-miR-218brainUUGUGCUUGAUCUAACCAUGU
miR-24375337591Ahsa-miR-24SZUGGCUCAGUUCAGCAGGAACAG
miR-320190219081Ahsa-miR-320AAAAGCUGGGUUGAGAGGGCGAA
miR-32828692875m8hsa-miR-328brainCUGGCCCUCUCUGCCCUUCCGU
miR-33930193071Ahsa-miR-33GUGCAUUGUAGUUGCAUUG
hsa-miR-33bGUGCAUUGCUGUUGCAUUGCA
miR-34637853791m8hsa-miR-346brainUGUCUGCCCGCAUGCCUGCCUCU
miR-36139964002m8hsa-miR-361brainUUAUCAGAAUCUCCAGGGGUAC
miR-369-3p71167122m8hsa-miR-369-3pAAUAAUACAUGGUUGAUCUUU
miR-409-3p141314191Ahsa-miR-409-3pCGAAUGUUGCUCGGUGAACCCCU
miR-448226232m8hsa-miR-448UUGCAUAUGUAGGAUGUCCCAU
miR-45216301636m8hsa-miR-452UGUUUGCAGAGGAAACUGAGAC
miR-494433443401Ahsa-miR-494brainUGAAACAUACACGGGAAACCUCUU
miR-495108114m8hsa-miR-495brainAAACAAACAUGGUGCACUUCUUU
miR-5392322391A,m8hsa-miR-539GGAGAAAUUAUCCUUGGUGUGU