Variant report

Variant	rs4743942
Chromosome Location	chr9:96773760-96773761
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96773554..96776449-chr9:96974238..96977177,2	MCF-7	breast:
2	chr9:96772918..96776515-chr9:96790364..96794299,3	MCF-7	breast:
3	chr9:96773280..96775592-chr9:96928831..96930974,2	K562	blood:
4	chr9:96762892..96765043-chr9:96770336..96774570,3	MCF-7	breast:
5	chr9:96772712..96774231-chr9:96780568..96782311,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000158079	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10114421	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10114811	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10116489	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.88[TSI][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10116746	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10122071	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10125538	0.87[LWK][hapmap]
rs10761314	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10821272	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10821276	1.00[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10821280	0.80[EUR][1000 genomes]
rs10821281	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs10821283	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs10821289	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993003	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10993009	0.95[EUR][1000 genomes]
rs10993028	0.96[EUR][1000 genomes]
rs10993030	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10993032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10993035	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10993039	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993044	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10993057	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11793324	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11795301	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12340234	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.91[MEX][hapmap];0.87[MKK][hapmap];0.88[TSI][hapmap];0.89[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12353106	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1317246	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1592152	0.80[EUR][1000 genomes]
rs1819446	0.93[AFR][1000 genomes]
rs1854836	0.80[EUR][1000 genomes]
rs1933670	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1963282	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2094929	0.80[EUR][1000 genomes]
rs2211361	0.83[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.88[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2225937	0.80[EUR][1000 genomes]
rs57094654	0.95[EUR][1000 genomes]
rs6479526	0.86[MKK][hapmap]
rs7020044	0.83[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.88[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7045483	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7859394	0.84[EUR][1000 genomes]
rs7866395	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7868385	0.80[EUR][1000 genomes]
rs932949	0.96[YRI][hapmap];0.92[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96764400-96774200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:96772400-96774000	Enhancers	Stomach Mucosa	stomach
3	chr9:96772800-96774200	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr9:96773000-96773800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr9:96773000-96773800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
6	chr9:96773000-96774000	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr9:96773000-96774200	Enhancers	Primary T cells fromperipheralblood	blood
8	chr9:96773000-96774200	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr9:96773000-96774200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr9:96773000-96774200	Enhancers	Brain Anterior Caudate	brain
11	chr9:96773000-96774200	Enhancers	Fetal Stomach	stomach
12	chr9:96773000-96774400	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr9:96773000-96774400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr9:96773000-96774400	Enhancers	Stomach Smooth Muscle	stomach
15	chr9:96773000-96774600	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr9:96773000-96774600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr9:96773000-96775800	Enhancers	Primary T cells from cord blood	blood
18	chr9:96773200-96774200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr9:96773200-96775200	Enhancers	Fetal Lung	lung
20	chr9:96773400-96773800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr9:96773400-96774000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
22	chr9:96773400-96774200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr9:96773600-96773800	Enhancers	HSMMtube	muscle
24	chr9:96773600-96774200	Enhancers	Lung	lung
25	chr9:96773600-96774600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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