Variant report

Variant	rs11689490
Chromosome Location	chr2:20281927-20281928
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:20280896..20282415-chr2:20296609..20299521,2	K562	blood:
2	chr2:20277155..20282170-chr2:20290246..20293600,5	MCF-7	breast:
3	chr2:20254933..20256660-chr2:20280504..20283208,2	MCF-7	breast:
4	chr2:20248757..20252967-chr2:20277280..20285105,10	MCF-7	breast:
5	chr2:20249786..20253556-chr2:20278179..20282611,6	MCF-7	breast:
6	chr2:20276734..20283198-chr2:20287354..20293786,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000068697	Chromatin interaction
ENSG00000223734	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10169811	0.95[CEU][hapmap];0.80[CHB][hapmap];0.90[CHD][hapmap];0.84[MEX][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10171384	0.95[CEU][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10195803	0.95[CEU][hapmap];0.90[CHD][hapmap];0.84[EUR][1000 genomes]
rs10199614	0.95[CEU][hapmap];0.80[CHB][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10200946	0.94[LWK][hapmap]
rs10207632	0.84[EUR][1000 genomes]
rs10208355	0.91[CEU][hapmap]
rs1028054	0.95[CEU][hapmap];0.80[CHB][hapmap];0.83[EUR][1000 genomes]
rs1028055	0.95[CEU][hapmap];0.90[CHD][hapmap];0.84[MEX][hapmap];0.83[EUR][1000 genomes]
rs11096639	0.91[CEU][hapmap]
rs11673841	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11677734	0.85[CEU][hapmap]
rs11679737	0.90[CEU][hapmap];0.89[CHB][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.81[MEX][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs11682837	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11685443	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11685788	0.95[CEU][hapmap]
rs11690530	0.95[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.90[EUR][1000 genomes]
rs11692546	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs11694170	0.81[CHD][hapmap]
rs11900576	0.91[CEU][hapmap]
rs13005386	0.86[CEU][hapmap]
rs13391566	0.91[CEU][hapmap]
rs1513831	0.81[CHD][hapmap]
rs1554007	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55971461	0.83[EUR][1000 genomes]
rs62112180	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6531203	0.91[CEU][hapmap]
rs6531204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6531205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6531206	0.95[CEU][hapmap];0.83[EUR][1000 genomes]
rs6531207	0.95[CEU][hapmap];0.80[CHB][hapmap];0.82[EUR][1000 genomes]
rs6708655	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6709349	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6749952	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7556745	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs7558628	0.95[CEU][hapmap];0.80[CHB][hapmap];0.87[CHD][hapmap];0.84[MEX][hapmap];0.83[EUR][1000 genomes]
rs7561381	0.91[CEU][hapmap]
rs7572608	0.95[CEU][hapmap];0.80[CHB][hapmap];0.83[EUR][1000 genomes]
rs7576433	0.88[YRI][hapmap]
rs7582437	0.91[CEU][hapmap]
rs7583420	0.95[CEU][hapmap];0.80[CHB][hapmap];0.83[EUR][1000 genomes]
rs7609013	0.95[CEU][hapmap];0.80[CHB][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs878983	0.90[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs907864	0.91[CEU][hapmap]

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20277400-20282400	Enhancers	Placenta	Placenta
2	chr2:20279600-20282000	Enhancers	Fetal Muscle Trunk	muscle
3	chr2:20279600-20282200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:20280200-20282000	Enhancers	Ovary	ovary
5	chr2:20280200-20282000	Enhancers	Pancreas	Pancrea
6	chr2:20280200-20282200	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr2:20280200-20282400	Enhancers	Fetal Muscle Leg	muscle
8	chr2:20280400-20282000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:20280400-20282000	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr2:20280400-20282000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr2:20280600-20282000	Enhancers	H1 Cell Line	embryonic stem cell
12	chr2:20280600-20282200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr2:20280600-20282200	Enhancers	HSMMtube	muscle
14	chr2:20280800-20282000	Enhancers	Brain Germinal Matrix	brain
15	chr2:20280800-20291000	Weak transcription	A549	lung
16	chr2:20281000-20282000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr2:20281200-20282000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr2:20281200-20282000	Weak transcription	Fetal Lung	lung
19	chr2:20281200-20282200	Bivalent Enhancer	HepG2	liver
20	chr2:20281200-20291200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr2:20281600-20282200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr2:20281600-20282400	Enhancers	NHEK	skin
23	chr2:20281600-20282600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr2:20281800-20282000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr2:20281800-20282000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr2:20281800-20282200	Enhancers	H9 Cell Line	embryonic stem cell
27	chr2:20281800-20282200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr2:20281800-20282200	Enhancers	Esophagus	oesophagus
29	chr2:20281800-20282200	Enhancers	HMEC	breast
30	chr2:20281800-20282400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr2:20281800-20282400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr2:20281800-20282800	Enhancers	Hela-S3	cervix

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