Variant report

Variant	rs6915627
Chromosome Location	chr6:35128330-35128331
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35124633..35127354-chr6:35127421..35129351,2	MCF-7	breast:
2	chr6:35127079..35138793-chr6:35145525..35157743,32	MCF-7	breast:
3	chr6:35126225..35131731-chr6:35132022..35136988,7	MCF-7	breast:
4	chr6:35121968..35124065-chr6:35126804..35128608,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ANKS1A-1	chr6:35127447-35132003	ENSG00000244904

Extended variants
information (count: 30 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10456078	0.84[EUR][1000 genomes]
rs10484578	0.87[CHB][hapmap]
rs10807147	0.86[CEU][hapmap];0.82[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10807148	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10947538	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12191117	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12191184	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12191808	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12192566	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12527639	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12663320	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1408256	0.84[CEU][hapmap];0.87[CHB][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.84[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1535814	0.84[CEU][hapmap];0.86[CHB][hapmap];0.80[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17539666	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1886242	0.84[EUR][1000 genomes]
rs1886243	0.84[CEU][hapmap];0.87[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2181795	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3800402	0.81[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4711404	0.80[EUR][1000 genomes]
rs4711406	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62404566	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62404583	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6457805	0.84[EUR][1000 genomes]
rs6923951	0.84[CEU][hapmap];0.87[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7764636	0.80[EUR][1000 genomes]
rs9296143	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9348967	0.83[CEU][hapmap]
rs9348968	0.83[EUR][1000 genomes]
rs9357195	0.83[EUR][1000 genomes]
rs9368849	0.84[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6915627	HCK	trans	lymphoblastoid	seeQTL
rs6915627	GRM4	cis	cerebellum	SCAN
rs6915627	NUDT3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35116800-35129200	Weak transcription	Aorta	Aorta
2	chr6:35118600-35132200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr6:35123800-35129000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:35126200-35129600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:35127200-35129000	Weak transcription	NHDF-Ad	bronchial
6	chr6:35127400-35129400	Enhancers	Liver	Liver
7	chr6:35127600-35128400	Enhancers	Fetal Lung	lung
8	chr6:35127600-35128600	Enhancers	Right Atrium	heart
9	chr6:35127600-35129200	Enhancers	Spleen	Spleen
10	chr6:35127600-35130600	Enhancers	Adipose Nuclei	Adipose
11	chr6:35127600-35130800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:35128000-35128600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:35128000-35128600	Enhancers	Lung	lung
14	chr6:35128000-35129000	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr6:35128000-35129000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:35128000-35129000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr6:35128000-35129200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:35128200-35128600	Enhancers	Esophagus	oesophagus
19	chr6:35128200-35128600	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr6:35128200-35128600	Bivalent Enhancer	HepG2	liver
21	chr6:35128200-35129000	Enhancers	HMEC	breast
22	chr6:35128200-35129000	Enhancers	NHEK	skin
23	chr6:35128200-35129200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
24	chr6:35128200-35129800	Weak transcription	Pancreas	Pancrea
25	chr6:35128200-35130000	Enhancers	Fetal Stomach	stomach
26	chr6:35128200-35130400	Enhancers	Fetal Kidney	kidney
27	chr6:35128200-35130400	Enhancers	HUVEC	blood vessel

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