Variant report

Variant	rs12336022
Chromosome Location	chr9:95639398-95639399
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95630407..95632096-chr9:95638470..95640204,2	K562	blood:
2	chr9:95570373..95571952-chr9:95637590..95640500,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187984	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10115872	0.92[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123843	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123870	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10156497	0.95[ASN][1000 genomes]
rs1022833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10739932	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10739933	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739934	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739938	0.86[AMR][1000 genomes]
rs10761172	0.95[ASN][1000 genomes]
rs10761175	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10761177	0.82[AMR][1000 genomes]
rs10821021	0.95[ASN][1000 genomes]
rs10821022	0.95[ASN][1000 genomes]
rs10821028	0.95[ASN][1000 genomes]
rs10821030	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821031	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821032	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821035	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821040	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992489	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992529	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12003440	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs12337654	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12338961	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12346689	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12379300	0.95[ASN][1000 genomes]
rs13288901	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13293147	0.88[JPT][hapmap]
rs13294147	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs2296060	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs28700150	0.92[ASN][1000 genomes]
rs36194652	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3824428	0.95[ASN][1000 genomes]
rs4078292	0.86[JPT][hapmap]
rs4133033	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4510923	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4535796	0.87[ASN][1000 genomes]
rs4538949	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4626670	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4744150	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6479434	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7032277	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035868	0.81[ASN][1000 genomes]
rs7035881	0.86[JPT][hapmap]
rs7039812	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7040645	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7043469	0.88[JPT][hapmap]
rs7045305	0.95[ASN][1000 genomes]
rs7047181	0.81[ASN][1000 genomes]
rs7847713	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7847998	0.95[ASN][1000 genomes]
rs7869480	0.95[ASN][1000 genomes]
rs7872848	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7872987	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7873021	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7874026	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv893574	chr9:95580376-95688099	Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv972781	chr9:95639258-95671744	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95609000-95639800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:95616200-95639800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr9:95616400-95639800	Weak transcription	Small Intestine	intestine
4	chr9:95616600-95639600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:95618200-95639800	Weak transcription	Colonic Mucosa	Colon
6	chr9:95622600-95639400	Weak transcription	HSMMtube	muscle
7	chr9:95622600-95639600	Weak transcription	Fetal Kidney	kidney
8	chr9:95622600-95639800	Weak transcription	Aorta	Aorta
9	chr9:95623200-95639400	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr9:95625600-95639600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr9:95628200-95639800	Weak transcription	Right Atrium	heart
12	chr9:95630600-95639400	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr9:95630600-95639600	Weak transcription	Liver	Liver
14	chr9:95631000-95639400	Weak transcription	Brain Hippocampus Middle	brain
15	chr9:95631000-95639400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr9:95631000-95639600	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr9:95631200-95639600	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr9:95631200-95639800	Weak transcription	Placenta	Placenta
19	chr9:95631400-95639800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr9:95631800-95639600	Weak transcription	Primary B cells from peripheral blood	blood
21	chr9:95633200-95639400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr9:95633200-95639400	Weak transcription	Fetal Intestine Large	intestine
23	chr9:95633200-95639400	Weak transcription	Fetal Stomach	stomach
24	chr9:95633200-95639400	Weak transcription	Stomach Smooth Muscle	stomach
25	chr9:95633200-95639600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:95633200-95639600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:95633200-95639600	Weak transcription	Adipose Nuclei	Adipose
28	chr9:95633200-95639800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr9:95633200-95639800	Weak transcription	Left Ventricle	heart
30	chr9:95633200-95639800	Weak transcription	Lung	lung
31	chr9:95633200-95639800	Weak transcription	Thymus	Thymus
32	chr9:95633400-95639400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:95633400-95639600	Weak transcription	Fetal Thymus	thymus
34	chr9:95633400-95639800	Weak transcription	Fetal Intestine Small	intestine
35	chr9:95634200-95639400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr9:95634200-95639400	Weak transcription	Fetal Muscle Leg	muscle
37	chr9:95634400-95639400	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr9:95634400-95639600	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr9:95634400-95639600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr9:95635000-95639600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr9:95635000-95639800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr9:95635600-95639400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:95635800-95639400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr9:95636600-95639600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr9:95636600-95639800	Weak transcription	HSMM	muscle
46	chr9:95637000-95639600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr9:95637200-95639400	Enhancers	Fetal Brain Male	brain
48	chr9:95637200-95639800	Enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr9:95637400-95639600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
50	chr9:95637600-95639400	Enhancers	Primary T helper cells fromperipheralblood	blood

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