Summary ?
GeneID6633
SymbolSNRPD2
SynonymsSMD2|SNRPD1|Sm-D2
Descriptionsmall nuclear ribonucleoprotein D2 polypeptide
ReferenceMIM:601061|HGNC:HGNC:11159|Ensembl:ENSG00000125743|HPRD:03038|Vega:OTTHUMG00000182130
Gene typeprotein-coding
Map location19q13.2
Pascal p-value0.179
Sherlock p-value0.828
Fetal beta0.362
DMG1 (# studies)
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:vanEijk_2014Genome-wide DNA methylation analysisThis dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). 2
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 2

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg081308131946195655QPCTL;SNRPD21.799E-4-0.2370.034DMG:Wockner_2014
cg191544381945825730SNRPD24.192E-4-4.336DMG:vanEijk_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
snp_a-18569930SNRPD266330.18trans

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.

No co-expressed genes in brain regions


Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
CLNS1ACLCI | CLNS1B | IClnchloride channel, nucleotide-sensitive, 1AAffinity Capture-WesternBioGRID11713266 
DDX20DKFZp434H052 | DP103 | GEMIN3DEAD (Asp-Glu-Ala-Asp) box polypeptide 20-HPRD,BioGRID10601333 
E2F4E2F-4E2F transcription factor 4, p107/p130-bindingE2F4 interacts with SNRPD2 promoter.BIND15782160 
EEF1GEF1G | GIG35eukaryotic translation elongation factor 1 gammaTwo-hybridBioGRID16169070 
EGFRERBB | ERBB1 | HER1 | PIG61 | mENAepidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian)-HPRD12577067 
GEMIN5DKFZp586M1824 | MGC142174gem (nuclear organelle) associated protein 5-HPRD,BioGRID11714716 
GEMIN6FLJ23459gem (nuclear organelle) associated protein 6Gemin6 interacts with SmD2BIND11748230 
GEMIN6FLJ23459gem (nuclear organelle) associated protein 6Gemin6 interacts with SNRPD2 (SmD2)BIND15939020 
GEMIN6FLJ23459gem (nuclear organelle) associated protein 6-HPRD11748230 
GEMIN7SIP3gem (nuclear organelle) associated protein 7GEMIN7 interacts with SNRPD2 (SmD2)BIND12065586 
KAT5ESA1 | HTATIP | HTATIP1 | PLIP | TIP | TIP60 | cPLA2K(lysine) acetyltransferase 5Two-hybridBioGRID16169070 
LSM10MGC15749 | MST074 | MSTP074LSM10, U7 small nuclear RNA associatedAffinity Capture-MSBioGRID12975319 
LSM11FLJ38273LSM11, U7 small nuclear RNA associated-HPRD12975319 
LSM6YDR378CLSM6 homolog, U6 small nuclear RNA associated (S. cerevisiae)-HPRD,BioGRID15231747 
RNU11U11RNA, U11 small nuclearAffinity Capture-MSBioGRID15146077 
RNU12U12RNA, U12 small nuclearAffinity Capture-MSBioGRID15146077 
SF3A2PRP11 | PRPF11 | SAP62 | SF3a66splicing factor 3a, subunit 2, 66kDaAffinity Capture-MSBioGRID12234937 
SMN1BCD541 | SMA | SMA1 | SMA2 | SMA3 | SMA4 | SMA@ | SMN | SMNT | T-BCD541survival of motor neuron 1, telomericCo-fractionation
Co-purification
BioGRID10942426 
SMN2BCD541 | C-BCD541 | FLJ76644 | MGC20996 | MGC5208 | SMNCsurvival of motor neuron 2, centromeric-HPRD9323129 |10942426 
SNRPD1HsT2456 | SMD1 | SNRPDsmall nuclear ribonucleoprotein D1 polypeptide 16kDaCo-crystal Structure
Two-hybrid
BioGRID9417867 |10025403 
SNRPD1HsT2456 | SMD1 | SNRPDsmall nuclear ribonucleoprotein D1 polypeptide 16kDaSNRPD2 interacts with SNRPD1.BIND9417867 
SNRPEB-raf | SMEsmall nuclear ribonucleoprotein polypeptide ESNRPD2 interacts with SNRPE.BIND9417867 
SNRPEB-raf | SMEsmall nuclear ribonucleoprotein polypeptide ETwo-hybridBioGRID9417867 
SNRPFSMFsmall nuclear ribonucleoprotein polypeptide F-HPRD,BioGRID9417867 |11226169 
SNRPFSMFsmall nuclear ribonucleoprotein polypeptide FSNRPD2 interacts with SNRPF.BIND9417867 
STXBP3MUNC18-3 | MUNC18C | PSP | UNC-18Csyntaxin binding protein 3-HPRD12065586 
WDR77HKMT1069 | MEP50 | MGC2722 | Nbla10071 | RP11-552M11.3 | p44WD repeat domain 77-HPRD,BioGRID11756452 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG SPLICEOSOME 12872All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF NON CODING RNA 4929All SZGR 2.0 genes in this pathway
REACTOME PROCESSING OF CAPPED INTRON CONTAINING PRE MRNA 14077All SZGR 2.0 genes in this pathway
REACTOME MRNA PROCESSING 16186All SZGR 2.0 genes in this pathway
REACTOME MRNA SPLICING 11158All SZGR 2.0 genes in this pathway
REACTOME MRNA SPLICING MINOR PATHWAY 4519All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF RNA 330155All SZGR 2.0 genes in this pathway
RHEIN ALL GLUCOCORTICOID THERAPY DN 362238All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA UP 536340All SZGR 2.0 genes in this pathway
LI AMPLIFIED IN LUNG CANCER 178108All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779480All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP 769437All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP 292168All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517309All SZGR 2.0 genes in this pathway
SANA RESPONSE TO IFNG DN 8556All SZGR 2.0 genes in this pathway
POMEROY MEDULLOBLASTOMA PROGNOSIS DN 4328All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528324All SZGR 2.0 genes in this pathway
GRADE METASTASIS DN 4531All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871505All SZGR 2.0 genes in this pathway
WANG TUMOR INVASIVENESS UP 374247All SZGR 2.0 genes in this pathway
AGUIRRE PANCREATIC CANCER COPY NUMBER UP 298174All SZGR 2.0 genes in this pathway
HSIAO HOUSEKEEPING GENES 389245All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G3 UP 188121All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS UNANNOTATED DN 193112All SZGR 2.0 genes in this pathway
NAKAYAMA FGF2 TARGETS 2917All SZGR 2.0 genes in this pathway
KYNG WERNER SYNDROM AND NORMAL AGING DN 225124All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC UP 7253All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 13 172107All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP 756494All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682440All SZGR 2.0 genes in this pathway