Variant report

Variant	rs17730331
Chromosome Location	chr12:9178432-9178433
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:9101626..9103314-chr12:9176948..9179841,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000003056	Chromatin interaction
ENSG00000139187	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11048494	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11048496	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11502446	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12303154	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12322917	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12423652	0.96[ASN][1000 genomes]
rs12811795	0.96[ASN][1000 genomes]
rs12816157	0.98[ASN][1000 genomes]
rs12819409	0.96[ASN][1000 genomes]
rs12819575	0.98[ASN][1000 genomes]
rs12822685	0.98[ASN][1000 genomes]
rs12827501	0.98[ASN][1000 genomes]
rs17730391	0.98[ASN][1000 genomes]
rs1805668	0.98[ASN][1000 genomes]
rs1805669	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1805707	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2377678	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2377679	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2377680	0.98[ASN][1000 genomes]
rs2889705	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3026243	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3026244	0.98[ASN][1000 genomes]
rs34533518	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34651717	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34722215	0.93[ASN][1000 genomes]
rs34920912	0.98[ASN][1000 genomes]
rs35176717	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35377225	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35557651	0.98[ASN][1000 genomes]
rs36061702	0.97[ASN][1000 genomes]
rs4883206	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4883208	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4883209	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56083774	0.94[ASN][1000 genomes]
rs56143043	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56350793	0.98[ASN][1000 genomes]
rs60267183	0.98[ASN][1000 genomes]
rs61916006	0.98[ASN][1000 genomes]
rs7136274	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7136774	0.99[ASN][1000 genomes]
rs7302472	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7311267	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7311509	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs759468	0.98[ASN][1000 genomes]
rs759469	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs759470	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7953214	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7957626	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832327	chr12:9081779-9246220	Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1045317	chr12:9113216-9544655	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
3	esv2754892	chr12:9136351-9179007	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv973020	chr12:9163929-9182709	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:9165800-9182400	Weak transcription	Adipose Nuclei	Adipose
2	chr12:9174400-9181800	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr12:9174800-9185800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr12:9175200-9185800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr12:9176600-9182800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr12:9177000-9178600	Flanking Active TSS	Primary T cells from cord blood	blood
7	chr12:9177000-9179000	Enhancers	Thymus	Thymus
8	chr12:9177000-9180600	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr12:9177200-9178800	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr12:9177400-9178600	Enhancers	Dnd41	blood
11	chr12:9177600-9178600	Enhancers	Hela-S3	cervix
12	chr12:9177600-9180400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr12:9177600-9180400	Enhancers	Fetal Thymus	thymus
14	chr12:9177600-9181600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr12:9178200-9178800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
16	chr12:9178200-9179000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
17	chr12:9178200-9179400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr12:9178400-9178600	Enhancers	Primary T cells fromperipheralblood	blood
19	chr12:9178400-9178600	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr12:9178400-9178800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
21	chr12:9178400-9180000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr12:9178400-9180200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr12:9178400-9181800	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr12:9178400-9185000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr12:9178400-9216400	Weak transcription	Primary hematopoietic stem cells	blood

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