Variant report

Variant	rs10479190
Chromosome Location	chr5:101631790-101631791
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:62222226..62225133-chr5:101631590..101633345,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000199753	Chromatin interaction
ENSG00000266402	Chromatin interaction

Extended variants
information (count: 110 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10038081	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10038372	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10040933	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10041015	1.00[CHB][hapmap]
rs10041652	0.93[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs10044561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10045752	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10052669	0.92[CHB][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10052881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10054879	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap]
rs10055641	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10055840	0.84[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.84[MEX][hapmap]
rs10057361	0.94[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10059790	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10062073	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10063002	0.82[EUR][1000 genomes]
rs10063351	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10063981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10066445	0.90[ASN][1000 genomes]
rs10067051	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070402	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10072122	0.94[CEU][hapmap];0.92[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10072167	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10073892	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs10074392	1.00[ASW][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10077220	0.82[EUR][1000 genomes]
rs10078945	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10214232	0.82[EUR][1000 genomes]
rs10479214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11745781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11746537	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13355136	0.94[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13356480	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13357340	0.82[EUR][1000 genomes]
rs13357585	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13357610	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13358420	0.82[EUR][1000 genomes]
rs13358421	0.82[EUR][1000 genomes]
rs13358882	0.82[EUR][1000 genomes]
rs13359098	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13359604	0.82[EUR][1000 genomes]
rs13360644	0.82[EUR][1000 genomes]
rs1376899	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1376901	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1584714	0.81[EUR][1000 genomes]
rs1584715	0.81[EUR][1000 genomes]
rs17271947	0.81[ASN][1000 genomes]
rs1823691	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1823692	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1901513	1.00[CHB][hapmap]
rs1901514	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs1901515	1.00[CHB][hapmap];0.84[JPT][hapmap]
rs1901519	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs2123131	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2123132	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2218926	0.82[EUR][1000 genomes]
rs28421510	0.82[EUR][1000 genomes]
rs28469696	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28481357	0.81[ASN][1000 genomes]
rs28602449	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28625937	0.82[EUR][1000 genomes]
rs28864102	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2895807	0.82[EUR][1000 genomes]
rs5012584	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57977588	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59648644	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59723886	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59934563	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60647834	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61335461	0.81[ASN][1000 genomes]
rs62372160	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62372161	0.81[ASN][1000 genomes]
rs62372163	0.81[ASN][1000 genomes]
rs62372166	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62372213	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62372214	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62372215	0.82[EUR][1000 genomes]
rs62372216	0.82[EUR][1000 genomes]
rs62372217	0.82[EUR][1000 genomes]
rs62372218	0.82[EUR][1000 genomes]
rs62372219	0.82[EUR][1000 genomes]
rs62372220	0.82[EUR][1000 genomes]
rs62372221	0.82[EUR][1000 genomes]
rs62372222	0.82[EUR][1000 genomes]
rs62372234	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62372301	0.90[ASN][1000 genomes]
rs6860730	1.00[CHB][hapmap];0.84[CHD][hapmap];0.85[JPT][hapmap]
rs6866041	0.81[ASN][1000 genomes]
rs6881472	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs6884301	0.92[CHB][hapmap];0.92[JPT][hapmap]
rs6892179	0.92[CHB][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs72777945	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72777964	0.81[ASN][1000 genomes]
rs7356787	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs7445156	0.82[EUR][1000 genomes]
rs7729674	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs9327814	0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9327815	0.81[ASN][1000 genomes]
rs9327821	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.94[TSI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327823	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327824	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327825	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022551	chr5:101366177-101649643	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv882505	chr5:101397849-101652251	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1028787	chr5:101432086-101718569	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv817537	chr5:101489151-101992104	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1016176	chr5:101534391-102333606	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv537831	chr5:101534391-102333606	Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv522882	chr5:101596633-101782930	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1029894	chr5:101620079-102516827	Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:101630200-101632000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr5:101630200-101632400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
3	chr5:101630400-101632600	Active TSS	Fetal Intestine Large	intestine
4	chr5:101630400-101632800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:101630400-101632800	Active TSS	Fetal Intestine Small	intestine
6	chr5:101630600-101632000	Flanking Active TSS	Primary B cells from cord blood	blood
7	chr5:101630600-101632400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
8	chr5:101630600-101632400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
9	chr5:101630600-101632600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr5:101630600-101632600	Active TSS	Fetal Kidney	kidney
11	chr5:101630800-101632600	Active TSS	Brain Angular Gyrus	brain
12	chr5:101630800-101632600	Active TSS	Rectal Smooth Muscle	rectum
13	chr5:101630800-101632800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
14	chr5:101630800-101633000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr5:101630800-101633000	Active TSS	HepG2	liver
16	chr5:101631000-101631800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
17	chr5:101631000-101631800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr5:101631000-101632000	Enhancers	Small Intestine	intestine
19	chr5:101631000-101632200	Active TSS	iPS-15b Cell Line	embryonic stem cell
20	chr5:101631000-101632600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr5:101631000-101632600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
22	chr5:101631000-101632600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:101631000-101632600	Active TSS	Brain Germinal Matrix	brain
24	chr5:101631000-101632800	Active TSS	H9 Cell Line	embryonic stem cell
25	chr5:101631000-101632800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr5:101631000-101632800	Active TSS	Pancreatic Islets	Pancreatic Islet
27	chr5:101631200-101631800	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
28	chr5:101631200-101632000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
29	chr5:101631200-101632000	Flanking Active TSS	Brain Hippocampus Middle	brain
30	chr5:101631200-101632000	Flanking Active TSS	Duodenum Mucosa	Duodenum
31	chr5:101631200-101632400	Active TSS	iPS-18 Cell Line	embryonic stem cell
32	chr5:101631200-101632400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
33	chr5:101631200-101632400	Active TSS	Breast Myoepithelial Primary Cells	Breast
34	chr5:101631200-101632400	Active TSS	Primary neutrophils fromperipheralblood	blood
35	chr5:101631200-101632400	Flanking Active TSS	Fetal Muscle Leg	muscle
36	chr5:101631200-101632600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr5:101631200-101632600	Active TSS	Primary T killer memory cells from peripheral blood	blood
38	chr5:101631200-101632600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
39	chr5:101631200-101632600	Flanking Active TSS	Fetal Thymus	thymus
40	chr5:101631200-101632800	Flanking Active TSS	Primary hematopoietic stem cells	blood
41	chr5:101631200-101632800	Active TSS	Rectal Mucosa Donor 29	rectum
42	chr5:101631400-101631800	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr5:101631400-101631800	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr5:101631400-101631800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr5:101631400-101631800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr5:101631400-101631800	Flanking Bivalent TSS/Enh	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr5:101631400-101631800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
48	chr5:101631400-101631800	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr5:101631400-101631800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
50	chr5:101631400-101631800	Flanking Bivalent TSS/Enh	Muscle Satellite Cultured Cells	--

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