Variant report

Variant	rs7799846
Chromosome Location	chr7:40045476-40045477
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	chr7:39987570..39989729-chr7:40044473..40047444,2	MCF-7	breast:
2	chr7:39988360..39989993-chr7:40043124..40045978,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259826	Chromatin interaction
ENSG00000065883	Chromatin interaction

Extended variants
information (count: 153 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs10046564	0.80[CEU][hapmap]
rs10081308	0.86[EUR][1000 genomes]
rs10156182	0.82[AFR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10227386	0.84[CEU][hapmap]
rs10233552	0.89[ASN][1000 genomes]
rs10234693	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10243593	0.80[CEU][hapmap]
rs10246466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1024680	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10252631	0.85[ASN][1000 genomes]
rs10254394	0.85[ASN][1000 genomes]
rs10261251	0.84[CEU][hapmap]
rs10267954	0.81[EUR][1000 genomes]
rs10268288	0.93[EUR][1000 genomes]
rs10269349	0.84[CEU][hapmap]
rs10272641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10275761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1082028	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1082030	0.90[EUR][1000 genomes]
rs10951623	0.86[ASN][1000 genomes]
rs10951624	0.85[ASN][1000 genomes]
rs10951625	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10951626	0.92[CEU][hapmap]
rs11760739	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs11763047	0.85[CEU][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]
rs11768464	0.80[CEU][hapmap]
rs11972983	0.85[ASN][1000 genomes]
rs11977756	0.81[CHB][hapmap];0.86[ASN][1000 genomes]
rs11980745	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11983287	0.89[ASN][1000 genomes]
rs12333929	0.84[CEU][hapmap]
rs12334141	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12530776	0.81[EUR][1000 genomes]
rs12530835	0.84[ASN][1000 genomes]
rs12531761	0.89[ASN][1000 genomes]
rs12531774	0.93[ASN][1000 genomes]
rs12532714	0.81[CHB][hapmap];0.86[ASN][1000 genomes]
rs12533272	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12534074	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs12534103	0.84[ASN][1000 genomes]
rs12535524	0.82[EUR][1000 genomes]
rs12536190	0.84[ASN][1000 genomes]
rs12536726	0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12537125	0.85[ASN][1000 genomes]
rs12537320	0.82[ASN][1000 genomes]
rs12539956	0.84[ASN][1000 genomes]
rs1257698	0.89[ASN][1000 genomes]
rs1257699	1.00[CEU][hapmap];0.86[CHB][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12669872	0.84[ASN][1000 genomes]
rs12672040	0.85[ASN][1000 genomes]
rs12672136	0.83[ASN][1000 genomes]
rs12672142	0.83[ASN][1000 genomes]
rs13231777	0.84[CEU][hapmap]
rs13239106	0.81[CEU][hapmap]
rs13310449	0.80[CEU][hapmap]
rs1403381	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1534675	0.89[CEU][hapmap]
rs1568645	0.91[EUR][1000 genomes]
rs17171637	0.80[CHB][hapmap];0.86[ASN][1000 genomes]
rs17171645	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17171646	0.89[ASN][1000 genomes]
rs17171658	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs17496429	0.90[ASN][1000 genomes]
rs17496670	0.85[ASN][1000 genomes]
rs17496733	0.83[ASN][1000 genomes]
rs17537767	0.86[ASN][1000 genomes]
rs17538125	0.86[ASN][1000 genomes]
rs1874233	0.84[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs1881684	0.81[EUR][1000 genomes]
rs2015842	0.82[ASN][1000 genomes]
rs2024200	0.84[CEU][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs2036041	0.81[CEU][hapmap]
rs2052097	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2056775	0.84[CEU][hapmap]
rs2077124	0.83[ASN][1000 genomes]
rs2109339	0.86[ASN][1000 genomes]
rs2109340	0.88[EUR][1000 genomes]
rs2159488	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2159489	0.87[ASN][1000 genomes]
rs2302341	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2329611	0.81[CEU][hapmap]
rs2329693	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28742222	0.87[EUR][1000 genomes]
rs33999222	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3735135	0.86[ASN][1000 genomes]
rs3800799	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs3800802	0.80[ASN][1000 genomes]
rs3801238	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3847018	0.82[YRI][hapmap]
rs3847019	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3847020	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3847021	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs3911836	0.82[ASN][1000 genomes]
rs3911889	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3966459	0.84[CEU][hapmap]
rs4344004	0.80[CHB][hapmap];0.86[ASN][1000 genomes]
rs4720347	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4720348	0.86[ASN][1000 genomes]
rs4720349	0.85[ASN][1000 genomes]
rs4723923	0.84[ASN][1000 genomes]
rs4723924	0.83[YRI][hapmap]
rs4723925	0.93[ASN][1000 genomes]
rs4723927	0.89[ASN][1000 genomes]
rs4723928	0.89[ASN][1000 genomes]
rs4723929	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs4723931	0.87[EUR][1000 genomes]
rs60315659	0.86[ASN][1000 genomes]
rs6462961	0.84[CEU][hapmap]
rs6462962	0.84[CEU][hapmap]
rs6462963	0.84[CEU][hapmap]
rs6948982	0.85[CEU][hapmap]
rs6952597	0.96[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6954096	0.84[CEU][hapmap]
rs6960111	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6963804	0.88[EUR][1000 genomes]
rs6966917	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6974493	0.92[CEU][hapmap];1.00[YRI][hapmap]
rs6975853	0.94[EUR][1000 genomes]
rs6979628	0.82[CEU][hapmap]
rs731847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs731848	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs758696	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs773379	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs773381	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs773382	0.81[CEU][hapmap]
rs773385	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs773386	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs773393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs773397	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs773402	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs773403	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs773410	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs773411	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs773413	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs773414	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs773415	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs773424	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7779663	0.83[ASN][1000 genomes]
rs7797041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7808529	0.85[CEU][hapmap]
rs7810509	0.87[EUR][1000 genomes]
rs887447	0.88[CEU][hapmap]
rs9639818	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9690188	0.82[EUR][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	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	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
8	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
9	nsv887978	chr7:40030488-40124137	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 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	chr7:40018600-40047800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr7:40020400-40077600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr7:40023400-40046800	Weak transcription	HMEC	breast
5	chr7:40025600-40046800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr7:40025600-40055400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr7:40025800-40054800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr7:40025800-40055400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr7:40025800-40055400	Weak transcription	Fetal Heart	heart
10	chr7:40025800-40055400	Weak transcription	Stomach Mucosa	stomach
11	chr7:40025800-40059600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr7:40025800-40062800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr7:40025800-40082200	Weak transcription	Spleen	Spleen
14	chr7:40026000-40071200	Weak transcription	Brain Germinal Matrix	brain
15	chr7:40026600-40096800	Weak transcription	Right Ventricle	heart
16	chr7:40027800-40047400	Weak transcription	Fetal Kidney	kidney
17	chr7:40027800-40047600	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr7:40027800-40047800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr7:40027800-40048400	Weak transcription	Brain Cingulate Gyrus	brain
20	chr7:40027800-40049600	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr7:40027800-40053800	Weak transcription	HepG2	liver
22	chr7:40027800-40054800	Weak transcription	Aorta	Aorta
23	chr7:40027800-40055400	Weak transcription	Fetal Brain Female	brain
24	chr7:40028000-40047400	Weak transcription	Brain Hippocampus Middle	brain
25	chr7:40028000-40047400	Weak transcription	HSMMtube	muscle
26	chr7:40028000-40047800	Weak transcription	NH-A	brain
27	chr7:40028000-40077800	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr7:40028000-40127800	Weak transcription	Colonic Mucosa	Colon
29	chr7:40028200-40047400	Weak transcription	Hela-S3	cervix
30	chr7:40028200-40047800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr7:40028200-40048000	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr7:40028200-40073000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr7:40028600-40049400	Weak transcription	Thymus	Thymus
34	chr7:40032200-40049400	Weak transcription	Lung	lung
35	chr7:40032200-40049600	Weak transcription	Fetal Stomach	stomach
36	chr7:40032200-40049800	Weak transcription	Ovary	ovary
37	chr7:40032800-40047600	Weak transcription	Brain Anterior Caudate	brain
38	chr7:40033200-40047400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr7:40033600-40047600	Weak transcription	Brain Angular Gyrus	brain
40	chr7:40034400-40072200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr7:40036600-40053000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr7:40037000-40046000	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr7:40038800-40050000	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr7:40039400-40046200	Strong transcription	Fetal Thymus	thymus
45	chr7:40039600-40047800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr7:40040000-40047800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr7:40040400-40045600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr7:40041400-40051000	Strong transcription	Primary B cells from peripheral blood	blood
49	chr7:40041400-40051600	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr7:40041800-40045600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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