Variant report

Variant	rs237016
Chromosome Location	chr6:149744859-149744860
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149740980..149743677-chr6:149744800..149747765,2	K562	blood:
2	chr6:149744819..149747181-chr6:149748180..149751163,2	MCF-7	breast:
3	chr6:149352125..149354322-chr6:149744702..149746498,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236591	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11155639	0.82[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.84[TSI][hapmap]
rs11155641	0.96[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11155644	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11964335	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13219868	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1446556	0.82[CEU][hapmap];0.93[CHB][hapmap];0.84[MEX][hapmap];0.84[TSI][hapmap]
rs1626823	0.83[ASN][1000 genomes]
rs1900300	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs237003	0.92[EUR][1000 genomes]
rs237009	0.92[EUR][1000 genomes]
rs237010	0.88[CEU][hapmap];0.92[EUR][1000 genomes]
rs237012	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs237018	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237019	0.83[CHB][hapmap];0.81[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs237024	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237025	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237026	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237028	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.90[YRI][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237029	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs237035	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.90[YRI][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs366905	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs372205	0.88[CEU][hapmap];0.96[TSI][hapmap]
rs372238	0.88[EUR][1000 genomes]
rs394563	0.88[GIH][hapmap]
rs409099	0.90[EUR][1000 genomes]
rs409111	0.89[EUR][1000 genomes]
rs415434	0.90[EUR][1000 genomes]
rs438852	0.88[GIH][hapmap]
rs4895787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6570963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6570964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6906384	0.85[ASN][1000 genomes]
rs6922130	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6942381	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7752555	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7753269	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs805026	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv517606	chr6:149744632-149755695	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149709600-149750200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:149721800-149745200	Weak transcription	Pancreas	Pancrea
3	chr6:149722000-149745000	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:149731600-149745200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:149731600-149745200	Weak transcription	Left Ventricle	heart
6	chr6:149731600-149745200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:149731800-149745200	Weak transcription	Fetal Brain Female	brain
8	chr6:149732200-149745000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr6:149732400-149745200	Weak transcription	Brain Germinal Matrix	brain
10	chr6:149732600-149745400	Weak transcription	Dnd41	blood
11	chr6:149742000-149745000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:149744000-149745600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr6:149744000-149746800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:149744200-149745600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:149744400-149745000	Enhancers	Liver	Liver
16	chr6:149744400-149745200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:149744400-149745200	Active TSS	Brain Anterior Caudate	brain
18	chr6:149744400-149745200	Active TSS	Brain Inferior Temporal Lobe	brain
19	chr6:149744400-149745200	Weak transcription	Placenta	Placenta
20	chr6:149744400-149745200	Weak transcription	Lung	lung
21	chr6:149744400-149745400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:149744400-149745400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:149744400-149745400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:149744400-149745400	Enhancers	Muscle Satellite Cultured Cells	--
25	chr6:149744400-149745400	Enhancers	HSMMtube	muscle
26	chr6:149744400-149745400	Flanking Active TSS	Osteobl	bone
27	chr6:149744400-149745600	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr6:149744400-149745600	Enhancers	Ovary	ovary
29	chr6:149744600-149745000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:149744600-149745000	Active TSS	Duodenum Smooth Muscle	Duodenum
31	chr6:149744600-149745000	Enhancers	NHLF	lung
32	chr6:149744600-149745200	Active TSS	Brain Angular Gyrus	brain
33	chr6:149744600-149745200	Active TSS	Brain Cingulate Gyrus	brain
34	chr6:149744600-149745200	Active TSS	Brain Hippocampus Middle	brain
35	chr6:149744600-149745200	Weak transcription	Duodenum Mucosa	Duodenum
36	chr6:149744600-149745200	Enhancers	Fetal Intestine Small	intestine
37	chr6:149744600-149745200	Flanking Active TSS	NHDF-Ad	bronchial
38	chr6:149744600-149745400	Active TSS	Aorta	Aorta
39	chr6:149744600-149745400	Active TSS	Stomach Smooth Muscle	stomach
40	chr6:149744600-149745600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:149744600-149745600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:149744600-149745600	Enhancers	HSMM	muscle
43	chr6:149744600-149746400	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr6:149744800-149745000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:149744800-149745000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:149744800-149745000	Flanking Active TSS	Brain Substantia Nigra	brain
47	chr6:149744800-149745000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
48	chr6:149744800-149745200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr6:149744800-149745200	Active TSS	Adipose Nuclei	Adipose
50	chr6:149744800-149745200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

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