Variant report

Variant	rs3181349
Chromosome Location	chr9:117694005-117694006
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	chr9:117676811..117678604-chr9:117693310..117696147,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10118244	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10124990	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10817681	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10982443	0.96[EUR][1000 genomes]
rs10982448	1.00[CEU][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1108983	0.96[EUR][1000 genomes]
rs3181192	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3181194	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs3181346	0.85[CEU][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3181350	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181353	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181357	0.94[AFR][1000 genomes]
rs3181359	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181360	0.87[AFR][1000 genomes]
rs3181362	0.87[CEU][hapmap];0.92[YRI][hapmap]
rs3789882	0.87[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs4978612	0.87[AFR][1000 genomes]
rs61024439	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6478118	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs7028089	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7854103	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7868670	0.86[AFR][1000 genomes]
rs7871914	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831695	chr9:117567626-117726247	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv6680	chr9:117690388-117699304	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117692800-117695200	Enhancers	Fetal Lung	lung
2	chr9:117693200-117694200	Enhancers	Fetal Thymus	thymus
3	chr9:117693200-117697200	Weak transcription	Adipose Nuclei	Adipose
4	chr9:117693400-117694200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:117693400-117694200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr9:117693400-117694200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:117693400-117694400	Enhancers	Primary T cells fromperipheralblood	blood
8	chr9:117693400-117694400	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr9:117693400-117694400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr9:117693400-117694400	Flanking Active TSS	Thymus	Thymus
11	chr9:117693400-117695200	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr9:117693600-117694200	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
13	chr9:117693600-117694200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
14	chr9:117693600-117694200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
15	chr9:117693600-117694200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:117693600-117694200	Enhancers	Primary T cells from cord blood	blood
17	chr9:117693600-117694200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr9:117693600-117694400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
19	chr9:117693600-117694400	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr9:117693600-117694400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr9:117693600-117694400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:117693600-117697200	Weak transcription	Right Atrium	heart
23	chr9:117693800-117694200	Enhancers	Primary hematopoietic stem cells	blood
24	chr9:117693800-117695000	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr9:117693800-117697800	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr9:117693800-117698800	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr9:117694000-117694200	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
28	chr9:117694000-117695200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr9:117694000-117698600	Weak transcription	Primary monocytes fromperipheralblood	blood

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