Gene Page: SIPA1L3

Summary ?
GeneID23094
SymbolSIPA1L3
SynonymsCTRCT45|SPAL3|SPAR3
Descriptionsignal-induced proliferation-associated 1 like 3
ReferenceMIM:616655|HGNC:HGNC:23801|Ensembl:ENSG00000105738|HPRD:18755|Vega:OTTHUMG00000073727
Gene typeprotein-coding
Map location19q13.13
Pascal p-value3.149E-4
Sherlock p-value0.703
Fetal beta-0.638
DMG1 (# studies)
eGeneMyers' cis & trans
SupportCompositeSet
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
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). 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg244207261938684319SIPA1L34.594E-40.7070.046DMG:Wockner_2014

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
snp_a-20718720SIPA1L3230940.17trans
rs1146358chr1116657767SIPA1L3230940trans
rs1934578chr1246016476SIPA1L3230940.09trans
rs1934577chr1246016542SIPA1L3230940.01trans
rs17012898chr233601648SIPA1L3230940.17trans
rs17012916chr233606031SIPA1L3230940.11trans
rs2716734chr239947720SIPA1L3230942.476E-7trans
rs2716736chr239947946SIPA1L3230942.476E-7trans
rs6543046chr2102043302SIPA1L3230940.12trans
rs6754175chr2135333296SIPA1L3230940.01trans
rs7651626chr34133729SIPA1L3230940.04trans
rs17039866chr34136543SIPA1L3230940.01trans
rs11928084chr34138812SIPA1L3230945.794E-4trans
rs9882137chr329494146SIPA1L3230940.13trans
rs17052053chr352334592SIPA1L3230940.1trans
rs16850133chr3140030776SIPA1L3230942.052E-5trans
rs7638929chr3140031075SIPA1L3230941.069E-4trans
rs2597796chr417535859SIPA1L3230940.05trans
rs1248551chr446074678SIPA1L3230940.18trans
rs17023105chr496074164SIPA1L3230940.14trans
rs10516959chr496088848SIPA1L3230940.14trans
rs2713946chr4111197804SIPA1L3230940.01trans
rs16869878chr52523760SIPA1L3230949.032E-6trans
rs467856chr53128168SIPA1L3230948.64E-6trans
rs16902549chr513407346SIPA1L3230940.02trans
rs1010527chr513508264SIPA1L3230940.11trans
rs1992711chr513510917SIPA1L3230940.11trans
rs6451640chr520088127SIPA1L3230940.01trans
snp_a-21696230SIPA1L3230944.063E-6trans
rs6873234chr5169299967SIPA1L3230943.234E-4trans
rs73835480SIPA1L3230943.758E-4trans
rs2016128chr642442743SIPA1L3230940.2trans
rs1587434chr666615354SIPA1L3230943.987E-10trans
rs4557559chr6118406801SIPA1L3230940trans
rs6949211chr711231070SIPA1L3230940.17trans
rs17154235chr726692981SIPA1L3230940.07trans
rs4947631chr750603378SIPA1L3230941.938E-4trans
rs10257132chr751422943SIPA1L3230940.01trans
rs17155272chr781248809SIPA1L3230940.15trans
rs529539chr784003500SIPA1L3230940.03trans
rs7796458chr7154873701SIPA1L3230940.11trans
rs870686chr825253521SIPA1L3230940.01trans
rs10503771chr825304019SIPA1L3230940.02trans
rs2810511chr9136791540SIPA1L3230940.04trans
rs10994470chr1051558659SIPA1L3230940.02trans
rs12767540chr1056171628SIPA1L3230940.15trans
rs16928875chr1073212531SIPA1L3230940.09trans
rs12268485chr1083608740SIPA1L3230940.15trans
rs17106311chr1087897271SIPA1L3230940.19trans
rs17107175chr1088646323SIPA1L3230940.03trans
rs1539587chr10115372155SIPA1L3230940.06trans
rs10768704chr1141581241SIPA1L3230940.15trans
rs11037691chr1143891636SIPA1L3230940.09trans
rs4944475chr1183985410SIPA1L3230940.04trans
rs12270706chr11109947508SIPA1L3230940.02trans
rs7298298chr1217810638SIPA1L3230940.03trans
rs11183748chr1247516125SIPA1L3230940.14trans
rs12423193chr1263753383SIPA1L3230944.845E-4trans
rs9888446chr1263785677SIPA1L3230943.26E-4trans
rs1400878chr1283609397SIPA1L3230940trans
rs16945217chr12115679171SIPA1L3230940.01trans
rs998923chr1335507810SIPA1L3230944.133E-4trans
rs2764585chr1346880234SIPA1L3230940.01trans
rs987104chr1361340410SIPA1L3230940.2trans
rs9590075chr1395414389SIPA1L3230940.1trans
snp_a-22223550SIPA1L3230940trans
rs7176277chr1563316182SIPA1L3230940.05trans
rs6495316chr1578986100SIPA1L3230940.11trans
rs1461211chr1588628773SIPA1L3230940.05trans
rs16972025chr1619461881SIPA1L3230940.03trans
rs1557515chr1619462965SIPA1L3230940.17trans
rs4792093chr1710939374SIPA1L3230940.02trans
rs7223509chr1710940048SIPA1L3230940.02trans
rs1015663chr1714238086SIPA1L3230940.01trans
rs295104chr1732814665SIPA1L3230940trans
rs349973chr1750642288SIPA1L3230940.01trans
rs8078127chr1750761342SIPA1L3230940trans
rs10512600chr1772812978SIPA1L3230947.026E-4trans
rs2661679chr1776172103SIPA1L3230940trans
rs7217417chr1776173174SIPA1L3230940trans
rs6040607chr2011371092SIPA1L3230940.06trans
rs4270401chr2061343887SIPA1L3230942.866E-4trans
rs225434chr2143724740SIPA1L3230940.02trans
rs10521889chrX149836861SIPA1L3230940.03trans

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
DYRK1A0.950.96
EXOC70.950.96
ANKRD170.940.95
FAM161B0.940.96
MBD50.940.95
TGFBRAP10.940.96
ZFYVE10.940.95
YTHDF10.940.95
N4BP10.940.95
KIAA14090.940.94
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.31-0.81-0.86
MT-CO2-0.80-0.86
AF347015.21-0.78-0.90
AF347015.27-0.77-0.82
HIGD1B-0.76-0.84
AF347015.8-0.76-0.84
MT-CYB-0.76-0.81
FXYD1-0.76-0.81
IFI27-0.76-0.81
AF347015.33-0.75-0.79

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
ODONNELL TFRC TARGETS UP 456228All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS UP 238144All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS DN 12073All SZGR 2.0 genes in this pathway
ROVERSI GLIOMA COPY NUMBER UP 10075All SZGR 2.0 genes in this pathway
OXFORD RALB TARGETS DN 96All SZGR 2.0 genes in this pathway
FURUKAWA DUSP6 TARGETS PCI35 DN 7440All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP 292168All SZGR 2.0 genes in this pathway
YAGI AML WITH T 8 21 TRANSLOCATION 368247All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 LCP WITH H3K4ME3 16280All SZGR 2.0 genes in this pathway
MIKKELSEN IPS LCP WITH H3K4ME3 174100All SZGR 2.0 genes in this pathway
MIKKELSEN ES LCP WITH H3K4ME3 14280All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 19721213All SZGR 2.0 genes in this pathway