Gene Page:LRRC4C

Summary?
GeneID 57689
Symbol LRRC4C
Synonyms NGL-1|NGL1
Description leucine rich repeat containing 4C
Reference MIM:608817|HGNC:HGNC:29317|Ensembl:ENSG00000148948|HPRD:12303|Vega:OTTHUMG00000166383
Gene type protein-coding
Map location 11p12
Pascal p-value 0.017
Fetal beta -1.641

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:GWAScat Genome-wide Association Studies This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1

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
Gene Pearson's Correlation Spearman's Correlation
TCAP 0.85 0.59
NPPA 0.78 0.78
C13orf33 0.78 0.59
CAMK1 0.76 0.68
CCIN 0.72 0.71
DUSP13 0.72 0.78
MATK 0.72 0.69
NPBWR1 0.71 0.70
KIF12 0.71 0.69
PLCD3 0.71 0.68
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AC005035.1 -0.45 -0.60
MAP4K4 -0.43 -0.58
FAM107B -0.43 -0.54
AC005071.3 -0.39 -0.52
PHLDB1 -0.39 -0.46
LAS1L -0.39 -0.55
ZNF652 -0.39 -0.53
NEK3 -0.39 -0.57
SEMA4B -0.39 -0.49
PHKA2 -0.38 -0.51

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005515 protein binding 新闻学会 14595443
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0050770 regulation of axonogenesis IDA neuron, axon (GO term level: 13) 14595443
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0016020 membrane IDA 14595443
GO:0016021 integral to membrane NAS 14595443

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG AXON GUIDANCE 129 103 All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS DN 536 332 All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP 1278 748 All SZGR 2.0 genes in this pathway
FURUKAWA DUSP6 TARGETS PCI35 UP 74 32 All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517 309 All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP 430 288 All SZGR 2.0 genes in this pathway
阿塞维多甲基化在活R CANCER DN 940 425 All SZGR 2.0 genes in this pathway
MIKKELSEN IPS ICP WITH H3K27ME3 54 32 All SZGR 2.0 genes in this pathway
MIKKELSEN NPC ICP WITH H3K4ME3 445 257 All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080 713 All SZGR 2.0 genes in this pathway
DURAND STROMA S UP 297 194 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-129-5p 90 96 1A hsa-miR-129brain CUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5p CUUUUUGCGGUCUGGGCUUGCU
hsa-miR-129brain CUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5p CUUUUUGCGGUCUGGGCUUGCU
miR-494 85 91 1A hsa-miR-494brain UGAAACAUACACGGGAAACCUCUU