Gene Page:SGCD

Summary?
GeneID 6444
Symbol SGCD
Synonyms 35DAG|CMD1L|DAGD|SG-delta|SGCDP|SGD
Description sarcoglycan delta
Reference MIM:601411|HGNC:HGNC:10807|Ensembl:ENSG00000170624|HPRD:03246|Vega:OTTHUMG00000163445
Gene type protein-coding
Map location 5q33.3
Pascal p-value 3.602E-4
Fetal beta -1.815
eGene Myers' cis & trans

Gene in Data Sources
基因集名称 Method of gene set Description Info
CV:GWASdb 全基因组关联研究 GWASdb records for schizophrenia
CV:PGCnp Genome-wide Association Study GWAS
GSMA_I Genome scan meta-analysis Psr: 0.0032
GSMA_IIE Genome scan meta-analysis (European-ancestry samples) Psr: 0.01718
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.00459

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs1507047 chr16 50932778 SGCD 6444 0.17 trans

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
B4GALT5 0.93 0.95
SLAIN2 0.93 0.94
CLASP1 0.92 0.94
ZNF828 0.92 0.93
SEC31A 0.92 0.94
EXOC2 0.92 0.95
POLR3A 0.92 0.94
STAU1 0.92 0.93
WDR82 0.91 0.94
KBTBD6 0.91 0.94
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
FXYD1 -0.73 -0.86
AF347015.31 -0.71 -0.84
MT-CO2 -0.71 -0.86
AF347015.27 -0.71 -0.83
C5orf53 -0.71 -0.75
S100B -0.71 -0.81
HSD17B14 -0.71 -0.78
AF347015.33 -0.70 -0.83
TSC22D4 -0.70 -0.77
AIFM3 -0.69 -0.74

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005515 protein binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007010 cytoskeleton organization IEA -
GO:0007517 muscle development TAS 8841194|8842738
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005856 cytoskeleton IEA -
GO:0005737 cytoplasm IEA -
GO:0016021 integral to membrane IEA -
GO:0005886 plasma membrane TAS 8842738
GO:0016012 sarcoglycan complex IEA -
GO:0016012 sarcoglycan complex TAS 8841194

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG HYPERTROPHIC CARDIOMYOPATHY HCM 85 65 All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC 76 59 All SZGR 2.0 genes in this pathway
KEGG DILATED CARDIOMYOPATHY 92 68 All SZGR 2.0 genes in this pathway
KEGG VIRAL MYOCARDITIS 73 58 All SZGR 2.0 genes in this pathway
SCHUETZ BREAST CANCER DUCTAL INVASIVE UP 351 230 All SZGR 2.0 genes in this pathway
NEWMAN ERCC6 TARGETS DN 39 24 All SZGR 2.0 genes in this pathway
LEE NEURAL CREST STEM CELL UP 146 99 All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER DN 232 154 All SZGR 2.0 genes in this pathway
MARKEY RB1 CHRONIC LOF UP 115 78 All SZGR 2.0 genes in this pathway
EBAUER TARGETS OF PAX3 FOXO1 FUSION UP 207 128 All SZGR 2.0 genes in this pathway
EBAUER MYOGENIC TARGETS OF PAX3 FOXO1 FUSION 50 26 All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP 201 127 All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882 572 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298 200 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR DN 504 323 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 18HR DN 178 121 All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE DN 261 183 All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 6 189 112 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260 174 All SZGR 2.0 genes in this pathway
CHANG CYCLING GENES 148 83 All SZGR 2.0 genes in this pathway
MIKKELSEN ES ICP WITH H3K4ME3 AND H3K27ME3 137 85 All SZGR 2.0 genes in this pathway
WHITFIELD CELL CYCLE G2 182 102 All SZGR 2.0 genes in this pathway
STAMBOLSKY TARGETS OF MUTATED TP53 UP 49 35 All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT 567 365 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B 549 316 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137 655 All SZGR 2.0 genes in this pathway
KATSANOU ELAVL1 TARGETS DN 148 88 All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN 418 245 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
let-7/98 1292 1298 m8 hsa-let-7abrain UGAGGUAGUAGGUUGUAUAGUU
hsa-let-7bbrain UGAGGUAGUAGGUUGUGUGGUU
hsa-let-7cbrain UGAGGUAGUAGGUUGUAUGGUU
hsa-let-7dbrain AGAGGUAGUAGGUUGCAUAGU
hsa-let-7ebrain UGAGGUAGGAGGUUGUAUAGU
hsa-let-7fbrain UGAGGUAGUAGAUUGUAUAGUU
hsa-miR-98brain UGAGGUAGUAAGUUGUAUUGUU
hsa-let-7gSZ UGAGGUAGUAGUUUGUACAGU
hsa-let-7ibrain UGAGGUAGUAGUUUGUGCUGU
miR-124.1 1404 1411 1A,m8 hsa-miR-124a UUAAGGCACGCGGUGAAUGCCA
miR-124/506 1404 1410 1A hsa-miR-506 UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brain UAAGGCACGCGGUGAAUGCC
miR-137 5064 5070 m8 hsa-miR-137 UAUUGCUUAAGAAUACGCGUAG
miR-142-5p 2786 2792 1A hsa-miR-142-5p CAUAAAGUAGAAAGCACUAC
miR-15/16/195/424/497 5018 5024 m8 hsa-miR-15abrain UAGCAGCACAUAAUGGUUUGUG
hsa-miR-16brain UAGCAGCACGUAAAUAUUGGCG
hsa-miR-15bbrain UAGCAGCACAUCAUGGUUUACA
hsa-miR-195SZ UAGCAGCACAGAAAUAUUGGC
hsa-miR-424 CAGCAGCAAUUCAUGUUUUGAA
hsa-miR-497 CAGCAGCACACUGUGGUUUGU
miR-199 55 61 m8 hsa-miR-199a CCCAGUGUUCAGACUACCUGUUC
hsa-miR-199b CCCAGUGUUUAGACUAUCUGUUC
miR-214 5016 5022 m8 hsa-miR-214brain ACAGCAGGCACAGACAGGCAG
mir - 218 1433 1439 m8 hsa-miR-218brain UUGUGCUUGAUCUAACCAUGU
miR-26 3104 3110 1A hsa-miR-26abrain UUCAAGUAAUCCAGGAUAGGC
hsa-miR-26bSZ UUCAAGUAAUUCAGGAUAGGUU
miR-325 76 82 1A hsa-miR-325 CCUAGUAGGUGUCCAGUAAGUGU
miR-326 3901 3907 1A hsa-miR-326 CCUCUGGGCCCUUCCUCCAG
miR-33 1414 1420 m8 hsa-miR-33 GUGCAUUGUAGUUGCAUUG
hsa-miR-33b GUGCAUUGCUGUUGCAUUGCA
miR-331 1359 1365 1A hsa-miR-331brain GCCCCUGGGCCUAUCCUAGAA
miR-335 1344 1350 m8 hsa-miR-335brain UCAAGAGCAAUAACGAAAAAUGU
mir - 339 1357 1363 m8 hsa-miR-339 UCCCUGUCCUCCAGGAGCUCA
miR-361 4990 4996 1A hsa-miR-361brain UUAUCAGAAUCUCCAGGGGUAC
miR-410 2788 2794 1A hsa-miR-410 AAUAUAACACAGAUGGCCUGU
miR-504 1327 1334 1A,m8 hsa-miR-504 AGACCCUGGUCUGCACUCUAU
miR-539 4965 4972 1A,m8 hsa-miR-539 GGAGAAAUUAUCCUUGGUGUGU
miR-9 3179 3185 m8 hsa-miR-9SZ UCUUUGGUUAUCUAGCUGUAUGA