Gene Page: SLC7A6

Summary ?
GeneID9057
SymbolSLC7A6
SynonymsLAT-2|LAT3|y+LAT-2
Descriptionsolute carrier family 7 member 6
ReferenceMIM:605641|HGNC:HGNC:11064|Ensembl:ENSG00000103064|HPRD:12031|Vega:OTTHUMG00000176544
Gene typeprotein-coding
Map location16q22.1
Pascal p-value4.873E-6
Sherlock p-value0.351
Fetal beta1.036
DMG1 (# studies)
eGeneMyers' cis & trans
SupportCompositeSet

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Nishioka_2013Genome-wide DNA methylation analysisThe authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 1
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
SLC7A6chr1668330536GANM_001076785
NM_003983		p.426V>M
p.426V>M		missense
missense		SchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg223288901668298258SLC7A6-0.0270.42DMG:Nishioka_2013

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs6753473chr226526418SLC7A690570.14trans
rs16829545chr2151977407SLC7A690576.436E-10trans
rs7584986chr2184111432SLC7A690570.18trans
rs16955618chr1529937543SLC7A690571.931E-7trans
rs6032295chr2044178138SLC7A690570.08trans

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
GTF3C10.890.88
DAGLB0.880.87
PEX50.880.89
SLC25A250.880.90
BSDC10.880.87
FBXL140.880.88
USP190.880.87
IGHMBP20.880.87
MBD10.870.87
DHX300.870.86
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.31-0.74-0.76
AF347015.21-0.74-0.80
MT-CO2-0.73-0.75
AF347015.8-0.71-0.74
FXYD1-0.71-0.73
AF347015.33-0.71-0.72
HIGD1B-0.70-0.72
AF347015.27-0.69-0.73
C1orf54-0.69-0.79
MT-CYB-0.69-0.71

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
REACTOME CELL SURFACE INTERACTIONS AT THE VASCULAR WALL 9165All SZGR 2.0 genes in this pathway
REACTOME BASIGIN INTERACTIONS 3023All SZGR 2.0 genes in this pathway
REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE 3121All SZGR 2.0 genes in this pathway
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES 413270All SZGR 2.0 genes in this pathway
REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT 241157All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT OF INORGANIC CATIONS ANIONS AND AMINO ACIDS OLIGOPEPTIDES 9465All SZGR 2.0 genes in this pathway
REACTOME AMINO ACID AND OLIGOPEPTIDE SLC TRANSPORTERS 4936All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466331All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA UP 183119All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP 368234All SZGR 2.0 genes in this pathway
OSMAN BLADDER CANCER DN 406230All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP 457269All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR DN 167100All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA DN 14694All SZGR 2.0 genes in this pathway
ELVIDGE HIF1A TARGETS UP 6740All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 16521023All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442892All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779480All SZGR 2.0 genes in this pathway
OZEN MIR125B1 TARGETS 2515All SZGR 2.0 genes in this pathway
FAELT B CLL WITH VH3 21 UP 4430All SZGR 2.0 genes in this pathway
RAMALHO STEMNESS UP 206118All SZGR 2.0 genes in this pathway
YAMAZAKI TCEB3 TARGETS UP 175116All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 2 7252All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR 681420All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS PEAK AT 8HR 3931All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D8 4029All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911527All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011592All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP 393244All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210725All SZGR 2.0 genes in this pathway
ZHAN EARLY DIFFERENTIATION GENES DN 4229All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457302All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668419All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN 414237All SZGR 2.0 genes in this pathway
CHYLA CBFA2T3 TARGETS UP 387225All SZGR 2.0 genes in this pathway
BHAT ESR1 TARGETS VIA AKT1 UP 281183All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN 882538All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN 321200All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3 824528All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN 784464All SZGR 2.0 genes in this pathway
PECE MAMMARY STEM CELL DN 14688All SZGR 2.0 genes in this pathway
SMIRNOV RESPONSE TO IR 6HR UP 16697All SZGR 2.0 genes in this pathway