Variant report

Variant	rs10116746
Chromosome Location	chr9:96795797-96795798
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96790378..96795979-chr9:96796527..96801819,13	MCF-7	breast:
2	chr9:96794550..96796136-chr9:96973906..96976177,2	K562	blood:
3	chr9:96793114..96795953-chr9:96849084..96851331,2	K562	blood:
4	chr9:96789685..96792182-chr9:96794422..96796039,2	K562	blood:

Variant related genes	Relation type
ENSG00000227666	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10114421	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10114811	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[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];0.88[LWK][hapmap];0.95[MEX][hapmap];0.88[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10122071	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10125538	0.93[LWK][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes]
rs10761314	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[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];0.81[MKK][hapmap];0.92[EUR][1000 genomes];0.82[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];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10993003	0.90[EUR][1000 genomes]
rs10993009	0.95[EUR][1000 genomes]
rs10993028	0.96[EUR][1000 genomes]
rs10993030	0.85[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];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10993035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10993044	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10993057	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11793324	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11795301	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[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];0.93[LWK][hapmap];0.91[MEX][hapmap];0.93[MKK][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12353106	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1317246	0.84[EUR][1000 genomes]
rs1592152	0.80[EUR][1000 genomes]
rs1854836	0.80[EUR][1000 genomes]
rs1933670	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1963282	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[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];0.83[MKK][hapmap];0.88[TSI][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2225937	0.80[EUR][1000 genomes]
rs4743942	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]
rs57094654	0.95[EUR][1000 genomes]
rs6479526	0.91[MKK][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes]
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];0.83[MKK][hapmap];0.88[TSI][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[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];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7859394	0.83[EUR][1000 genomes]
rs7866395	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7868385	0.80[EUR][1000 genomes]
rs932949	0.96[YRI][hapmap];0.86[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:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96793800-96801000	Weak transcription	Pancreas	Pancrea
2	chr9:96793800-96804800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:96794200-96800200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr9:96794200-96803000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr9:96794200-96828000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr9:96794400-96796000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr9:96794400-96801200	Weak transcription	Psoas Muscle	Psoas
8	chr9:96794400-96804600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr9:96794600-96796000	Enhancers	Dnd41	blood
10	chr9:96794600-96797600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr9:96794600-96797600	Weak transcription	Fetal Lung	lung
12	chr9:96794600-96804600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr9:96794800-96795800	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr9:96794800-96798200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr9:96794800-96798800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr9:96794800-96801000	Weak transcription	Colon Smooth Muscle	Colon
17	chr9:96794800-96803600	Weak transcription	HepG2	liver
18	chr9:96794800-96805000	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr9:96794800-96805200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr9:96794800-96805600	Weak transcription	HSMM	muscle
21	chr9:96795400-96804600	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr9:96795400-96823800	Weak transcription	Left Ventricle	heart
23	chr9:96795600-96795800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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