Variant report

Variant	rs11924017
Chromosome Location	chr3:113260119-113260120
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:113233157..113235382-chr3:113259664..113262646,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163611	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12695292	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861130	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861157	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861165	1.00[ASN][1000 genomes]
rs2007579	0.91[ASN][1000 genomes]
rs2254267	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399483	0.91[ASN][1000 genomes]
rs2399486	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2895414	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732799	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4331647	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4508746	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4580515	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4621301	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58686141	0.91[ASN][1000 genomes]
rs58884094	0.96[ASN][1000 genomes]
rs59631554	0.96[ASN][1000 genomes]
rs59666592	0.91[ASN][1000 genomes]
rs6766534	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769995	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771864	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776729	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776974	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6780755	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782784	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6790846	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805231	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807610	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72946779	0.91[ASN][1000 genomes]
rs72950827	0.96[ASN][1000 genomes]
rs7612047	1.00[ASN][1000 genomes]
rs7620700	0.96[ASN][1000 genomes]
rs7646262	1.00[ASN][1000 genomes]
rs7653791	1.00[ASN][1000 genomes]
rs9682108	0.91[ASN][1000 genomes]
rs9848190	1.00[ASN][1000 genomes]
rs9852064	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854538	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[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	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv1004000	chr3:113116778-113513899	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers 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 miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv877349	chr3:113208224-113323787	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv877350	chr3:113208224-113332235	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
5	nsv524086	chr3:113255172-113264994	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	5 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	chr3:113253800-113260800	Weak transcription	Thymus	Thymus
2	chr3:113255400-113278800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:113255600-113274800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:113255600-113278400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr3:113256000-113279000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:113256200-113263600	ZNF genes & repeats	GM12878-XiMat	blood
7	chr3:113256600-113260200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr3:113257200-113260400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr3:113257200-113260400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr3:113257200-113262000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:113257200-113265200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr3:113257200-113265800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr3:113257200-113277400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr3:113257200-113283400	Weak transcription	Primary B cells from cord blood	blood
15	chr3:113257400-113260200	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr3:113257400-113264800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr3:113257600-113262200	Weak transcription	Brain Angular Gyrus	brain
18	chr3:113258400-113261400	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr3:113258400-113261600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr3:113258400-113262000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:113258400-113267600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:113259200-113260200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:113259400-113260200	Weak transcription	Primary T cells from cord blood	blood
24	chr3:113260000-113260200	Strong transcription	Primary B cells from peripheral blood	blood
25	chr3:113260000-113261000	ZNF genes & repeats	Fetal Thymus	thymus

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