Variant report

Variant	rs12336832
Chromosome Location	chr9:116032808-116032809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116024711..116027399-chr9:116031082..116034074,3	MCF-7	breast:
2	chr9:115911868..115913830-chr9:116031326..116033544,3	K562	blood:
3	chr9:116031284..116035003-chr9:116035037..116039754,9	K562	blood:

Variant related genes	Relation type
ENSG00000176386	Chromatin interaction
ENSG00000136875	Chromatin interaction
ENSG00000136867	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10481674	1.00[JPT][hapmap]
rs10759634	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10817463	0.83[ASN][1000 genomes]
rs10817464	0.91[ASW][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[GIH][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10817466	0.83[ASN][1000 genomes]
rs10817469	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10817471	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10817472	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10981690	0.80[EUR][1000 genomes]
rs10981695	1.00[CHB][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10981705	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10981733	1.00[JPT][hapmap]
rs10981743	1.00[JPT][hapmap]
rs10981745	1.00[JPT][hapmap]
rs10981746	1.00[JPT][hapmap]
rs10981747	1.00[JPT][hapmap]
rs10981748	1.00[JPT][hapmap]
rs11789755	0.91[YRI][hapmap]
rs12006029	1.00[JPT][hapmap]
rs12337552	1.00[JPT][hapmap]
rs12341669	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12342197	1.00[CEU][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12342549	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12343330	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12343629	0.91[YRI][hapmap]
rs12348629	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12349495	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12349500	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12349614	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12351168	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12351630	0.87[ASN][1000 genomes]
rs12352784	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12352925	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1543535	1.00[JPT][hapmap]
rs16932583	1.00[JPT][hapmap]
rs17764563	1.00[JPT][hapmap]
rs17831256	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28733164	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4437724	1.00[JPT][hapmap]
rs4442214	1.00[JPT][hapmap]
rs4636275	1.00[JPT][hapmap]
rs58402825	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66509679	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72758255	0.84[EUR][1000 genomes]
rs7858741	1.00[CHB][hapmap];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7863910	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7865438	1.00[JPT][hapmap]
rs7875945	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116008200-116037000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:116018600-116036000	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr9:116019600-116033200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr9:116021000-116036000	Strong transcription	Fetal Stomach	stomach
5	chr9:116022400-116036600	Weak transcription	Stomach Mucosa	stomach
6	chr9:116022800-116036600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr9:116023000-116033000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:116023000-116033200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:116023000-116036800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr9:116023400-116034200	Weak transcription	Colonic Mucosa	Colon
11	chr9:116026600-116035800	Strong transcription	Duodenum Smooth Muscle	Duodenum
12	chr9:116026800-116036000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:116027000-116035800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:116027000-116035800	Strong transcription	Skeletal Muscle Female	skeletal muscle
15	chr9:116027200-116033600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr9:116027200-116035200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr9:116027200-116035800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr9:116027200-116036000	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr9:116027200-116036000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr9:116027200-116036200	Strong transcription	Primary T cells from cord blood	blood
21	chr9:116027400-116036000	Strong transcription	Fetal Muscle Leg	muscle
22	chr9:116027800-116036200	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr9:116028000-116036000	Strong transcription	Primary neutrophils fromperipheralblood	blood
24	chr9:116028200-116035800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:116028400-116035400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr9:116028400-116036000	Strong transcription	Primary B cells from peripheral blood	blood
27	chr9:116028400-116036000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr9:116028400-116036200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr9:116028600-116034400	Strong transcription	Primary hematopoietic stem cells	blood
30	chr9:116028600-116035800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr9:116028600-116035800	Strong transcription	Adipose Nuclei	Adipose
32	chr9:116028600-116036000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr9:116028600-116036000	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr9:116028600-116036000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr9:116028600-116036000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr9:116028600-116036000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr9:116028600-116036000	Strong transcription	Placenta	Placenta
38	chr9:116028800-116035400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:116028800-116035600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr9:116028800-116035800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
41	chr9:116028800-116035800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr9:116028800-116035800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:116028800-116035800	Strong transcription	Dnd41	blood
44	chr9:116029000-116034200	Strong transcription	HSMM	muscle
45	chr9:116029000-116035400	Strong transcription	A549	lung
46	chr9:116029000-116035600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr9:116029000-116035800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr9:116029000-116036000	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr9:116029000-116036000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr9:116029600-116035600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood

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