Variant report

Variant	rs6901437
Chromosome Location	chr6:27742186-27742187
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27095110..27096779-chr6:27740302..27742676,2	K562	blood:
2	chr6:27114542..27117845-chr6:27741589..27745932,6	K562	blood:
3	chr6:27653465..27656102-chr6:27740718..27743462,2	K562	blood:
4	chr6:27738868..27742221-chr6:27743370..27745719,4	MCF-7	breast:
5	chr6:27113969..27118292-chr6:27739764..27746039,7	K562	blood:

Variant related genes	Relation type
ENSG00000265565	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000197903	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11962485	1.00[CEU][hapmap]
rs11962868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap]
rs11966528	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap]
rs11966565	1.00[ASN][1000 genomes]
rs11968469	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11970638	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap]
rs200466	0.87[TSI][hapmap];0.87[EUR][1000 genomes]
rs200469	0.90[MKK][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes]
rs200471	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs200473	0.87[EUR][1000 genomes]
rs200479	0.96[MKK][hapmap];0.87[TSI][hapmap]
rs56002038	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59199903	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60339576	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs666846	0.87[EUR][1000 genomes]
rs6901712	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906904	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6906980	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs6915101	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922530	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6933702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap]
rs6936952	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73384331	1.00[ASN][1000 genomes]
rs73389017	1.00[ASN][1000 genomes]
rs73389037	1.00[ASN][1000 genomes]
rs73389068	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7742752	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461422	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs9468227	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468262	1.00[CEU][hapmap];1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv830618	chr6:27593274-27789605	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	143 gene(s)	inside rSNPs	diseases
3	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
4	nsv1017440	chr6:27734824-27864277	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	370 gene(s)	inside rSNPs	diseases
5	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6901437	Hs.158943	cis	multi-tissue	Pritchard

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27725600-27743000	Weak transcription	Right Atrium	heart
2	chr6:27738600-27742400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:27739000-27742400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:27739000-27742400	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:27739200-27742200	Enhancers	GM12878-XiMat	blood
6	chr6:27739800-27742400	Enhancers	Primary B cells from cord blood	blood
7	chr6:27740000-27742200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:27740000-27742200	Enhancers	Stomach Mucosa	stomach
9	chr6:27740200-27745200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:27740400-27742200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr6:27740400-27742600	Enhancers	Fetal Intestine Small	intestine
12	chr6:27740400-27745200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:27740800-27742200	Enhancers	Duodenum Mucosa	Duodenum
14	chr6:27740800-27742600	Enhancers	Fetal Intestine Large	intestine
15	chr6:27740800-27743200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:27741000-27743400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:27741200-27743600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:27741200-27744600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr6:27741400-27744400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:27741600-27742600	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr6:27741800-27742200	Enhancers	HepG2	liver
22	chr6:27741800-27743200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr6:27741800-27744600	Weak transcription	A549	lung
24	chr6:27741800-27744600	Enhancers	K562	blood
25	chr6:27742000-27742200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
26	chr6:27742000-27742400	Enhancers	Rectal Mucosa Donor 29	rectum

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