Variant report

Variant	rs9316545
Chromosome Location	chr13:52049929-52049930
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:52024632..52028923-chr13:52048141..52051869,7	MCF-7	breast:
2	chr13:52041504..52043824-chr13:52049888..52052371,2	K562	blood:
3	chr13:52026794..52028617-chr13:52049580..52051866,4	K562	blood:
4	chr13:52025759..52029036-chr13:52048504..52052579,4	K562	blood:
5	chr13:52048427..52051082-chr13:52053156..52054989,2	MCF-7	breast:
6	chr13:52025807..52027945-chr13:52048875..52050455,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000102786	Chromatin interaction
ENSG00000236778	Chromatin interaction
ENSG00000224892	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs17075688	0.81[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs17194948	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs17195020	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2026526	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2026527	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2274061	0.82[CEU][hapmap]
rs2274929	0.82[CEU][hapmap]
rs2408363	0.86[JPT][hapmap]
rs3825524	0.82[CEU][hapmap]
rs56017742	0.84[ASN][1000 genomes]
rs73197809	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73197821	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73197824	0.92[EUR][1000 genomes]
rs73197826	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7321642	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7328715	0.90[ASN][1000 genomes]
rs7335122	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7335144	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7337450	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7989674	0.98[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7989850	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7996243	0.82[CEU][hapmap]
rs7998084	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs8001311	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9316541	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9316546	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9526752	0.81[CEU][hapmap]
rs9526757	0.80[CEU][hapmap]
rs9526758	0.90[ASN][1000 genomes]
rs9526759	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9526761	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9526764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9526768	0.92[EUR][1000 genomes]
rs9535645	0.82[CEU][hapmap]
rs9535646	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs9535652	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs9535653	0.81[CEU][hapmap]
rs9535655	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9535660	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9535661	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9535662	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9535663	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9535665	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9535670	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535671	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535672	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9535677	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9535678	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535679	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9535680	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535682	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9535683	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535687	0.94[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs9535688	0.91[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs9535689	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9535690	0.95[EUR][1000 genomes]
rs9535693	0.95[EUR][1000 genomes]
rs9535694	0.92[EUR][1000 genomes]
rs9535696	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9535697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9535699	0.90[CEU][hapmap];0.85[CHB][hapmap];0.92[EUR][1000 genomes]
rs9563046	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs9568600	1.00[CEU][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9568603	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs9568608	0.97[EUR][1000 genomes]
rs9568612	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9634842	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9316545	INTS6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52041800-52052600	Weak transcription	Pancreas	Pancrea
2	chr13:52045400-52050000	Weak transcription	Liver	Liver
3	chr13:52045400-52050000	Weak transcription	HepG2	liver
4	chr13:52049600-52050600	Enhancers	A549	lung
5	chr13:52049800-52050200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr13:52049800-52050200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr13:52049800-52050600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr13:52049800-52050600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr13:52049800-52050600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr13:52049800-52050800	Enhancers	Osteobl	bone
11	chr13:52049800-52051000	Enhancers	Primary hematopoietic stem cells	blood
12	chr13:52049800-52051000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr13:52049800-52051000	Enhancers	NHDF-Ad	bronchial
14	chr13:52049800-52051400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr13:52049800-52051400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr13:52049800-52051600	Enhancers	NHLF	lung

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