Variant report

Variant	rs10985573
Chromosome Location	chr9:101002868-101002869
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100993462..100999076-chr9:101001061..101006420,6	MCF-7	breast:
2	chr9:100991762..100993372-chr9:101000957..101003101,2	MCF-7	breast:
3	chr9:100996906..100999553-chr9:101002652..101004386,2	MCF-7	breast:
4	chr9:101001678..101003268-chr9:101092460..101094630,2	K562	blood:
5	chr9:101000479..101004519-chr9:101004686..101007074,4	MCF-7	breast:
6	chr9:101001085..101005688-chr9:101016159..101020159,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000224001	Chromatin interaction
ENSG00000095383	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10046819	1.00[ASN][1000 genomes]
rs10114211	1.00[ASN][1000 genomes]
rs10117265	1.00[CHB][hapmap]
rs10217245	1.00[ASN][1000 genomes]
rs10217458	1.00[ASN][1000 genomes]
rs10441752	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10760218	0.81[YRI][hapmap]
rs10818608	1.00[ASN][1000 genomes]
rs10818640	0.91[LWK][hapmap]
rs10985425	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10985528	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10985545	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10985570	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10985578	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10985730	1.00[ASN][1000 genomes]
rs12339078	1.00[ASN][1000 genomes]
rs12342843	1.00[ASN][1000 genomes]
rs12342968	1.00[ASN][1000 genomes]
rs12347046	1.00[ASN][1000 genomes]
rs12351571	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12352986	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs16914199	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs16914443	1.00[ASN][1000 genomes]
rs16915689	1.00[CHB][hapmap]
rs17690174	1.00[CHB][hapmap]
rs28524952	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28578965	1.00[ASN][1000 genomes]
rs34562398	1.00[ASN][1000 genomes]
rs36074616	1.00[ASN][1000 genomes]
rs41273923	1.00[ASN][1000 genomes]
rs41273925	1.00[ASN][1000 genomes]
rs41283618	1.00[ASN][1000 genomes]
rs4742725	1.00[ASN][1000 genomes]
rs4743187	0.91[LWK][hapmap]
rs553139	1.00[CHB][hapmap]
rs55974101	1.00[ASN][1000 genomes]
rs57611604	1.00[ASN][1000 genomes]
rs583115	1.00[CHB][hapmap]
rs58371820	1.00[ASN][1000 genomes]
rs59519660	1.00[ASN][1000 genomes]
rs61201457	1.00[ASN][1000 genomes]
rs644842	1.00[CHB][hapmap]
rs6478670	1.00[CHB][hapmap]
rs73490714	1.00[ASN][1000 genomes]
rs73490718	1.00[ASN][1000 genomes]
rs73490720	1.00[ASN][1000 genomes]
rs73490723	1.00[ASN][1000 genomes]
rs73490727	1.00[ASN][1000 genomes]
rs73490728	1.00[ASN][1000 genomes]
rs879368	0.91[LWK][hapmap]
rs9299277	1.00[CHB][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831663	chr9:100941048-101109492	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1045780	chr9:100943318-101080389	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv540180	chr9:100943318-101080389	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	esv1810342	chr9:100995758-101006339	Genic enhancers Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
6	esv3481700	chr9:100998431-101003029	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
7	esv3504400	chr9:100998987-101003473	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
8	esv1807264	chr9:101000545-101006339	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	n/a
9	esv1810101	chr9:101000545-101006339	Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100955800-101003200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:100968600-101010400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr9:100968800-101011000	Weak transcription	Primary B cells from peripheral blood	blood
4	chr9:100969400-101004800	Weak transcription	Brain Germinal Matrix	brain
5	chr9:100974800-101010600	Weak transcription	Colon Smooth Muscle	Colon
6	chr9:100980200-101010200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr9:100981800-101010400	Weak transcription	Fetal Thymus	thymus
8	chr9:100982800-101004600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:100983000-101007200	Weak transcription	Fetal Brain Male	brain
10	chr9:100983400-101006200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:100986000-101006200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:100989600-101006400	Weak transcription	Psoas Muscle	Psoas
13	chr9:100989600-101016000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr9:100991400-101006200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr9:100991400-101006200	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr9:100991400-101006400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr9:100991400-101010600	Weak transcription	Brain Cingulate Gyrus	brain
18	chr9:100991400-101015400	Weak transcription	Brain Anterior Caudate	brain
19	chr9:100991600-101003600	Weak transcription	Colonic Mucosa	Colon
20	chr9:100991800-101011400	Weak transcription	Right Ventricle	heart
21	chr9:100992200-101003000	Weak transcription	Primary B cells from cord blood	blood
22	chr9:100992200-101012800	Weak transcription	Brain Substantia Nigra	brain
23	chr9:100992200-101016000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr9:100992800-101006200	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr9:100993200-101010200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr9:100993400-101012600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr9:100993600-101006000	Weak transcription	Stomach Mucosa	stomach
28	chr9:100993600-101010400	Weak transcription	Left Ventricle	heart
29	chr9:100994600-101003000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr9:100995000-101016600	Weak transcription	Brain Angular Gyrus	brain
31	chr9:100995200-101006400	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr9:100995200-101010200	Weak transcription	NHDF-Ad	bronchial
33	chr9:100995400-101010400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:100995800-101003200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr9:100995800-101003400	Weak transcription	Hela-S3	cervix
36	chr9:100995800-101006200	Strong transcription	Muscle Satellite Cultured Cells	--
37	chr9:100995800-101006200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr9:100995800-101010400	Weak transcription	Adipose Nuclei	Adipose
39	chr9:100995800-101011200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr9:100996000-101003400	Weak transcription	Gastric	stomach
41	chr9:100996000-101006000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:100996000-101006200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr9:100996000-101006200	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr9:100996000-101010600	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr9:100996000-101010600	Weak transcription	Stomach Smooth Muscle	stomach
46	chr9:100996000-101012400	Weak transcription	Fetal Stomach	stomach
47	chr9:100996000-101016000	Weak transcription	Pancreas	Pancrea
48	chr9:100996200-101003600	Weak transcription	Brain Hippocampus Middle	brain
49	chr9:100996200-101004800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr9:100996200-101017200	Weak transcription	Ovary	ovary

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