Variant report

Variant	rs3735135
Chromosome Location	chr7:40027484-40027485
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:39989010..39992398-chr7:40024722..40029040,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259826	Chromatin interaction
ENSG00000065883	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10233552	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10252631	0.97[EUR][1000 genomes]
rs10261984	0.82[EUR][1000 genomes]
rs1082028	0.94[ASN][1000 genomes]
rs1082030	0.85[ASN][1000 genomes]
rs10951623	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10951624	0.97[EUR][1000 genomes]
rs10951625	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs11972983	1.00[EUR][1000 genomes]
rs11977756	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11983287	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12530835	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12531761	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12531774	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12532714	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12534103	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12535281	0.87[EUR][1000 genomes]
rs12536190	1.00[EUR][1000 genomes]
rs12536349	0.92[EUR][1000 genomes]
rs12536726	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12537125	1.00[EUR][1000 genomes]
rs12537320	1.00[EUR][1000 genomes]
rs12539956	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1257698	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1257699	0.96[ASN][1000 genomes]
rs12666454	0.98[EUR][1000 genomes]
rs12669872	1.00[EUR][1000 genomes]
rs12672040	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12672136	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12672142	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13438258	0.87[EUR][1000 genomes]
rs13438262	0.87[EUR][1000 genomes]
rs13438324	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs17171637	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17171645	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17171646	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17496429	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17496670	0.97[EUR][1000 genomes]
rs17496733	1.00[EUR][1000 genomes]
rs17537767	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17538125	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2015842	1.00[EUR][1000 genomes]
rs2159489	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2302341	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs2329615	0.87[EUR][1000 genomes]
rs28627647	0.84[EUR][1000 genomes]
rs28879668	0.87[EUR][1000 genomes]
rs3800799	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[EUR][1000 genomes]
rs3801238	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3847019	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3911836	1.00[EUR][1000 genomes]
rs3911889	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs4344004	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4720344	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4720347	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs4720349	0.97[EUR][1000 genomes]
rs4723923	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4723925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4723927	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4723928	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60315659	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6961040	0.87[EUR][1000 genomes]
rs6963973	0.87[EUR][1000 genomes]
rs6967332	0.87[EUR][1000 genomes]
rs6970469	0.84[EUR][1000 genomes]
rs758696	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs773379	0.87[ASN][1000 genomes]
rs773381	0.88[ASN][1000 genomes]
rs773385	0.96[ASN][1000 genomes]
rs773386	0.97[ASN][1000 genomes]
rs773393	0.83[ASN][1000 genomes]
rs773397	0.83[ASN][1000 genomes]
rs773403	0.91[ASN][1000 genomes]
rs773411	1.00[CEU][hapmap];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs773414	0.94[ASN][1000 genomes]
rs773415	0.85[ASN][1000 genomes]
rs773424	0.97[ASN][1000 genomes]
rs7779663	1.00[EUR][1000 genomes]
rs7799846	0.86[ASN][1000 genomes]
rs940272	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887973	chr7:39772654-40110720	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
2	nsv887975	chr7:39858378-40124137	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
3	nsv1015322	chr7:40006195-40141195	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	esv2761319	chr7:40006195-40142139	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv464436	chr7:40018693-40133044	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv606706	chr7:40018693-40133044	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv521293	chr7:40021044-40027484	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv518849	chr7:40021044-40030488	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv606707	chr7:40021044-40133044	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv606708	chr7:40021044-40157040	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39993600-40048200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr7:39995200-40042600	Weak transcription	K562	blood
3	chr7:40006800-40031200	Weak transcription	Fetal Stomach	stomach
4	chr7:40018600-40047800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr7:40019600-40029400	Weak transcription	Right Atrium	heart
6	chr7:40020000-40037400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr7:40020400-40077600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr7:40022800-40027600	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr7:40023000-40028000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr7:40023400-40046800	Weak transcription	HMEC	breast
11	chr7:40023800-40043200	Weak transcription	Stomach Smooth Muscle	stomach
12	chr7:40024400-40028200	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr7:40025000-40027800	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr7:40025000-40031400	Weak transcription	Fetal Intestine Small	intestine
15	chr7:40025400-40033200	Weak transcription	NHLF	lung
16	chr7:40025600-40027600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr7:40025600-40027600	Weak transcription	NH-A	brain
18	chr7:40025600-40031000	Weak transcription	Fetal Brain Male	brain
19	chr7:40025600-40031400	Weak transcription	Ovary	ovary
20	chr7:40025600-40031400	Weak transcription	Psoas Muscle	Psoas
21	chr7:40025600-40035600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr7:40025600-40037200	Weak transcription	Fetal Lung	lung
23	chr7:40025600-40042600	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr7:40025600-40046800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr7:40025600-40055400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr7:40025800-40031400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr7:40025800-40031400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr7:40025800-40031400	Weak transcription	Lung	lung
29	chr7:40025800-40035000	Weak transcription	GM12878-XiMat	blood
30	chr7:40025800-40039600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr7:40025800-40043200	Weak transcription	Left Ventricle	heart
32	chr7:40025800-40054800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr7:40025800-40055400	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr7:40025800-40055400	Weak transcription	Fetal Heart	heart
35	chr7:40025800-40055400	Weak transcription	Stomach Mucosa	stomach
36	chr7:40025800-40059600	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr7:40025800-40062800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr7:40025800-40082200	Weak transcription	Spleen	Spleen
39	chr7:40026000-40071200	Weak transcription	Brain Germinal Matrix	brain
40	chr7:40026200-40027600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr7:40026200-40031400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr7:40026400-40036800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr7:40026600-40027600	Weak transcription	Fetal Kidney	kidney
44	chr7:40026600-40028000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
45	chr7:40026600-40096800	Weak transcription	Right Ventricle	heart
46	chr7:40026800-40027800	Enhancers	Brain Cingulate Gyrus	brain
47	chr7:40026800-40027800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
48	chr7:40026800-40027800	Enhancers	Brain Substantia Nigra	brain
49	chr7:40026800-40028200	Enhancers	Primary T killer memory cells from peripheral blood	blood
50	chr7:40026800-40028200	Strong transcription	Dnd41	blood

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