Variant report

Variant	rs1886242
Chromosome Location	chr6:35117656-35117657
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35116601..35118172-chr6:35173986..35176309,2	MCF-7	breast:
2	chr6:35116846..35119289-chr6:35140930..35142825,2	MCF-7	breast:
3	chr6:35117065..35119670-chr6:35224171..35227113,2	K562	blood:
4	chr6:35112668..35114586-chr6:35117324..35120218,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000065029	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10456078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10807147	0.91[CEU][hapmap];0.90[EUR][1000 genomes]
rs10807148	0.90[EUR][1000 genomes]
rs12191808	0.85[EUR][1000 genomes]
rs12192566	0.90[EUR][1000 genomes]
rs12527639	0.90[EUR][1000 genomes]
rs12663320	0.85[EUR][1000 genomes]
rs1408256	0.92[CEU][hapmap];0.86[TSI][hapmap];0.90[EUR][1000 genomes]
rs1535814	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs16872324	1.00[YRI][hapmap]
rs17539666	0.90[EUR][1000 genomes]
rs1886243	0.92[CEU][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes]
rs2038740	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2181795	0.85[EUR][1000 genomes]
rs3800402	0.88[CEU][hapmap]
rs4711404	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4711406	0.90[EUR][1000 genomes]
rs62404566	0.89[EUR][1000 genomes]
rs62404583	0.90[EUR][1000 genomes]
rs6457803	1.00[YRI][hapmap]
rs6457804	0.84[GIH][hapmap]
rs6457805	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904920	0.94[ASN][1000 genomes]
rs6915627	0.84[EUR][1000 genomes]
rs6923951	0.92[CEU][hapmap];0.81[TSI][hapmap];0.89[EUR][1000 genomes]
rs7764636	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9296143	0.89[EUR][1000 genomes]
rs9348967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9348968	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357194	0.93[LWK][hapmap]
rs9357195	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368849	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394274	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1886242	TULP1	cis	parietal	SCAN
rs1886242	RAB31	trans	lymphoblastoid	seeQTL
rs1886242	NUDT3	cis	parietal	SCAN
rs1886242	HCK	trans	lymphoblastoid	seeQTL
rs1886242	SETBP1	trans	lymphoblastoid	seeQTL

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35113200-35118600	Enhancers	Fetal Heart	heart
2	chr6:35114000-35118000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:35114800-35119800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr6:35114800-35120000	Weak transcription	Brain Substantia Nigra	brain
5	chr6:35115200-35119400	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:35115200-35119800	Weak transcription	Brain Anterior Caudate	brain
7	chr6:35116000-35119600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:35116400-35118000	Enhancers	NHDF-Ad	bronchial
9	chr6:35116600-35117800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:35116600-35120000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:35116800-35118000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:35116800-35118400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:35116800-35119400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:35116800-35119400	Weak transcription	HMEC	breast
15	chr6:35116800-35119600	Weak transcription	HSMM	muscle
16	chr6:35116800-35120000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:35116800-35121600	Weak transcription	GM12878-XiMat	blood
18	chr6:35116800-35129200	Weak transcription	Aorta	Aorta
19	chr6:35117000-35118400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:35117000-35119400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:35117000-35119600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:35117000-35119600	Weak transcription	NH-A	brain
23	chr6:35117000-35119800	Weak transcription	NHEK	skin
24	chr6:35117000-35120400	Weak transcription	A549	lung
25	chr6:35117400-35119200	Weak transcription	Osteobl	bone
26	chr6:35117600-35119200	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr6:35117600-35119400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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