Gene Page: TFCP2L1

Summary ?
GeneID29842
SymbolTFCP2L1
SynonymsCRTR1|LBP-9|LBP9
Descriptiontranscription factor CP2-like 1
ReferenceMIM:609785|HGNC:HGNC:17925|Ensembl:ENSG00000115112|HPRD:18175|Vega:OTTHUMG00000131443
Gene typeprotein-coding
Map location2q14
Pascal p-value0.451
TADA p-value0.012

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DNM:McCarthy_2014Whole Exome Sequencing analysisWhole exome sequencing of 57 trios with sporadic or familial schizophrenia.
GSMA_IGenome scan meta-analysisPsr: 0.023 
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.00755 
ExpressionMeta-analysis of gene expressionP value: 1.59 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
TFCP2L1chr2122000033GTNM_014553p.D224Ymissense SNVCDSchizophreniaDNM:McCarthy_2014


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
C14orf930.910.88
TRIM280.910.74
EIF4EBP10.910.74
MTA20.900.79
FOXG1B0.900.71
DDAH20.900.81
ZNF2500.890.73
RNF1220.890.78
H3F3B0.890.82
IGFBP20.890.66
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
C5orf53-0.61-0.66
PLA2G4A-0.58-0.69
ME1-0.58-0.60
FBXO2-0.58-0.60
AF347015.31-0.58-0.70
CCNI2-0.58-0.63
AF347015.27-0.57-0.70
ABCG2-0.57-0.61
PTH1R-0.57-0.58
HLA-F-0.56-0.57

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003700transcription factor activityTAS10644752 
GO:0003714transcription corepressor activityTAS10644752 
GO:0016565general transcriptional repressor activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0000122negative regulation of transcription from RNA polymerase II promoterIEA-
GO:0000902cell morphogenesisIEA-
GO:0002070epithelial cell maturationIEA-
GO:0006350transcriptionIEA-
GO:0008340determination of adult life spanIEA-
GO:0007431salivary gland developmentIEA-
GO:0007565female pregnancyTAS10644752 
GO:0007028cytoplasm organizationIEA-
GO:0006694steroid biosynthetic processTAS10644752 
GO:0045927positive regulation of growthIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusIEA-
GO:0005737cytoplasmIEA-
GO:0016020membraneIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
LIU PROSTATE CANCER DN 481290All SZGR 2.0 genes in this pathway
SENGUPTA NASOPHARYNGEAL CARCINOMA WITH LMP1 DN 17582All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP 1142669All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP 612367All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 3 4WK UP 214144All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION APOBEC2 2719All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION 12HR 4335All SZGR 2.0 genes in this pathway
LIANG HEMATOPOIESIS STEM CELL NUMBER SMALL VS HUGE UP 3829All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP 487286All SZGR 2.0 genes in this pathway
BENPORATH ES CORE NINE CORRELATED 10068All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215 893528All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN 464276All SZGR 2.0 genes in this pathway
LANDEMAINE LUNG METASTASIS 2112All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882572All SZGR 2.0 genes in this pathway
IWANAGA CARCINOGENESIS BY KRAS PTEN UP 181112All SZGR 2.0 genes in this pathway
IWANAGA CARCINOGENESIS BY KRAS UP 170107All SZGR 2.0 genes in this pathway
AMBROSINI FLAVOPIRIDOL TREATMENT TP53 10963All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BONE DN 315197All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL UP 648398All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491316All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED 536296All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME3 AND H3K27ME3 1069729All SZGR 2.0 genes in this pathway
ROME INSULIN TARGETS IN MUSCLE DN 204114All SZGR 2.0 genes in this pathway
KORKOLA CORRELATED WITH POU5F1 3412All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 1 6850All SZGR 2.0 genes in this pathway
FIGUEROA AML METHYLATION CLUSTER 1 DN 4830All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137655All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS UP 11265All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745475All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 227149All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL DN 428246All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway
ZWANG EGF INTERVAL DN 214124All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-124/506587593m8hsa-miR-506UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brainUAAGGCACGCGGUGAAUGCC