Gene Page: RARB

Summary ?
GeneID5915
SymbolRARB
SynonymsHAP|MCOPS12|NR1B2|RRB2
Descriptionretinoic acid receptor beta
ReferenceMIM:180220|HGNC:HGNC:9865|Ensembl:ENSG00000077092|HPRD:07183|Vega:OTTHUMG00000130480
Gene typeprotein-coding
Map location3p24.2
Pascal p-value0.007
Fetal beta-3.078
eGeneMeta

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
GSMA_IGenome scan meta-analysisPsr: 0.006 

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
GenePearson's Correlation Spearman's Correlation
NUDT10.750.56
MED300.720.56
H2AFY20.720.44
HAUS10.710.58
LEMD10.710.50
HAUS40.710.63
DCAF130.710.45
C17orf450.700.58
TMSB100.700.56
RUVBL10.700.51
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
CCNI2-0.42-0.55
RAPGEF4-0.42-0.60
PK4P-0.42-0.55
OSBPL1A-0.41-0.60
ASPHD1-0.41-0.47
COBL-0.41-0.61
GAS2L1-0.41-0.47
EPB49-0.41-0.51
SPARCL1-0.41-0.51
BCL2L2-0.41-0.56

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004872receptor activityIEA-
GO:0003700transcription factor activityIEA-
GO:0003707steroid hormone receptor activityIEA-
GO:0003708retinoic acid receptor activityIDA2177841 
GO:0003708retinoic acid receptor activityIEA-
GO:0003708retinoic acid receptor activityTAS2833708 
GO:0008270zinc ion bindingIEA-
GO:0046872metal ion bindingIEA-
GO:0043565sequence-specific DNA bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006355regulation of transcription, DNA-dependentIDA2177841 
GO:0006355regulation of transcription, DNA-dependentIEA-
GO:0006350transcriptionIEA-
GO:0007165signal transductionTAS2833708 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005575cellular_componentND-
GO:0005634nucleusIDA2177841 
GO:0005634nucleusIEA-
GO:0005737cytoplasmIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG PATHWAYS IN CANCER 328259All SZGR 2.0 genes in this pathway
KEGG SMALL CELL LUNG CANCER 8467All SZGR 2.0 genes in this pathway
KEGG NON SMALL CELL LUNG CANCER 5447All SZGR 2.0 genes in this pathway
PID RXR VDR PATHWAY 2624All SZGR 2.0 genes in this pathway
PID RETINOIC ACID PATHWAY 3023All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA DN 526357All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA UP 544308All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
ZIRN TRETINOIN RESPONSE WT1 UP 2314All SZGR 2.0 genes in this pathway
ZIRN TRETINOIN RESPONSE UP 2113All SZGR 2.0 genes in this pathway
MARKS HDAC TARGETS UP 2315All SZGR 2.0 genes in this pathway
EBAUER TARGETS OF PAX3 FOXO1 FUSION UP 207128All SZGR 2.0 genes in this pathway
XU HGF TARGETS REPRESSED BY AKT1 DN 9558All SZGR 2.0 genes in this pathway
XU AKT1 TARGETS 48HR 96All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390236All SZGR 2.0 genes in this pathway
OHM METHYLATED IN ADULT CANCERS 2723All SZGR 2.0 genes in this pathway
OHM EMBRYONIC CARCINOMA DN 86All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY UP 10969All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS 988594All SZGR 2.0 genes in this pathway
BENPORATH MYC TARGETS WITH EBOX 230156All SZGR 2.0 genes in this pathway
NOUZOVA METHYLATED IN APL 6839All SZGR 2.0 genes in this pathway
NOUZOVA TRETINOIN AND H4 ACETYLATION 14385All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR 544307All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
WEIGEL OXIDATIVE STRESS BY HNE AND TBH 6042All SZGR 2.0 genes in this pathway
MOREIRA RESPONSE TO TSA DN 1816All SZGR 2.0 genes in this pathway
YIH RESPONSE TO ARSENITE C3 3624All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS DN 314188All SZGR 2.0 genes in this pathway
LOPES METHYLATED IN COLON CANCER UP 2720All SZGR 2.0 genes in this pathway
KONDO PROSTATE CANCER HCP WITH H3K27ME3 9772All SZGR 2.0 genes in this pathway
HOQUE METHYLATED IN CANCER 5645All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510309All SZGR 2.0 genes in this pathway
MATZUK SPERMATOCYTE 7255All SZGR 2.0 genes in this pathway
SHARMA PILOCYTIC ASTROCYTOMA LOCATION UP 2512All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305895All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED 536296All SZGR 2.0 genes in this pathway
LI PROSTATE CANCER EPIGENETIC 3022All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES DN 210141All SZGR 2.0 genes in this pathway
CAIRO LIVER DEVELOPMENT UP 166105All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC 1103714All SZGR 2.0 genes in this pathway
CARD MIR302A TARGETS 7762All SZGR 2.0 genes in this pathway
KATSANOU ELAVL1 TARGETS UP 169105All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR DN 244157All SZGR 2.0 genes in this pathway
DELACROIX RARG BOUND MEF 367231All SZGR 2.0 genes in this pathway
DELACROIX RAR TARGETS UP 4833All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES 462273All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489314All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-1/2062228m8hsa-miR-1UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZUGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613AGGAAUGUUCCUUCUUUGCC
miR-1013623681Ahsa-miR-101UACAGUACUGUGAUAACUGAAG
miR-130/3016646701Ahsa-miR-130abrainCAGUGCAAUGUUAAAAGGGCAU
hsa-miR-301CAGUGCAAUAGUAUUGUCAAAGC
hsa-miR-130bbrainCAGUGCAAUGAUGAAAGGGCAU
hsa-miR-454-3pUAGUGCAAUAUUGCUUAUAGGGUUU
miR-1331211271Ahsa-miR-133aUUGGUCCCCUUCAACCAGCUGU
hsa-miR-133bUUGGUCCCCUUCAACCAGCUA
miR-135879885m8hsa-miR-135aUAUGGCUUUUUAUUCCUAUGUGA
hsa-miR-135bUAUGGCUUUUCAUUCCUAUGUG
miR-141/200a8508571A,m8hsa-miR-141UAACACUGUCUGGUAAAGAUGG
hsa-miR-200aUAACACUGUCUGGUAACGAUGU
miR-14412571263m8hsa-miR-144UACAGUAUAGAUGAUGUACUAG
hsa-miR-144UACAGUAUAGAUGAUGUACUAG
miR-146113511421A,m8hsa-miR-146aUGAGAACUGAAUUCCAUGGGUU
hsa-miR-146bbrainUGAGAACUGAAUUCCAUAGGCU
miR-15/16/195/424/4977884m8hsa-miR-15abrainUAGCAGCACAUAAUGGUUUGUG
hsa-miR-16brainUAGCAGCACGUAAAUAUUGGCG
hsa-miR-15bbrainUAGCAGCACAUCAUGGUUUACA
hsa-miR-195SZUAGCAGCACAGAAAUAUUGGC
hsa-miR-424CAGCAGCAAUUCAUGUUUUGAA
hsa-miR-497CAGCAGCACACUGUGGUUUGU
miR-17-5p/20/93.mr/106/519.d7437491Ahsa-miR-17-5pCAAAGUGCUUACAGUGCAGGUAGU
hsa-miR-20abrainUAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106aAAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZUAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZCAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519dCAAAGUGCCUCCCUUUAGAGUGU
miR-203.12132191Ahsa-miR-203UGAAAUGUUUAGGACCACUAG
miR-29373379m8hsa-miR-29aSZUAGCACCAUCUGAAAUCGGUU
hsa-miR-29bSZUAGCACCAUUUGAAAUCAGUGUU
hsa-miR-29cSZUAGCACCAUUUGAAAUCGGU
miR-30-3p951021A,m8hsa-miR-30a-3pCUUUCAGUCGGAUGUUUGCAGC
hsa-miR-30e-3pCUUUCAGUCGGAUGUUUACAGC
miR-30-5p864870m8hsa-miR-30a-5pUGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrainUGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZUGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZUGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5pUGUAAACAUCCUUGACUGGA
hsa-miR-30a-5pUGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrainUGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZUGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZUGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5pUGUAAACAUCCUUGACUGGA
miR-34/4496977031Ahsa-miR-34abrainUGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34cAGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449bAGGCAGUGUAUUGUUAGCUGGC
miR-376c12461252m8hsa-miR-376cAACAUAGAGGAAAUUCCACG