Variant report

Variant	rs1381835
Chromosome Location	chr3:110600596-110600597
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:110599278..110601634-chr3:110605816..110607505,2	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10511291	0.96[EUR][1000 genomes]
rs10755069	0.92[ASN][1000 genomes]
rs12493974	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1350930	0.90[ASN][1000 genomes]
rs1350932	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1350979	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1381830	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1381833	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1381834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1381836	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1462299	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1462308	0.90[ASN][1000 genomes]
rs1462326	0.98[ASN][1000 genomes]
rs1462798	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1462802	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1542513	0.90[ASN][1000 genomes]
rs1599576	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16857350	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16857358	0.94[ASN][1000 genomes]
rs16857373	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16857536	0.96[EUR][1000 genomes]
rs1870926	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2045784	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2169497	0.92[ASN][1000 genomes]
rs2169565	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2219706	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2399364	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399369	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399373	0.85[CEU][hapmap]
rs4682024	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4682025	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4682027	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4682229	0.85[CEU][hapmap]
rs4682230	0.85[CEU][hapmap]
rs4682231	0.85[CEU][hapmap]
rs60037602	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6437934	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6763050	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805467	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72934030	0.96[EUR][1000 genomes]
rs72934034	0.96[EUR][1000 genomes]
rs72934100	0.96[EUR][1000 genomes]
rs72935934	0.96[EUR][1000 genomes]
rs72948740	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72948795	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72948800	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7433877	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.87[TSI][hapmap]
rs7629008	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7648752	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7650516	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs768686	0.85[ASN][1000 genomes]
rs873132	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.87[TSI][hapmap]
rs936512	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs969940	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828260	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9839231	1.00[EUR][1000 genomes]
rs9881407	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9883216	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs1381835	ARC	trans	brain	seeQTL
rs1381835	CCL3	trans	brain	seeQTL
rs1381835	FOSB	trans	brain	seeQTL
rs1381835	CCL3L1	trans	brain	seeQTL
rs1381835	EGR4	trans	brain	seeQTL
rs1381835	CCL4	trans	brain	seeQTL
rs1381835	PTGS2	trans	brain	seeQTL
rs1381835	EGR2	trans	brain	seeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110594200-110607600	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr3:110597000-110601200	Enhancers	Dnd41	blood
3	chr3:110597400-110600600	Enhancers	Liver	Liver
4	chr3:110599800-110600800	Enhancers	Fetal Brain Male	brain
5	chr3:110600000-110600600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:110600400-110600600	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links