Variant report

Variant	rs1249426
Chromosome Location	chr2:141941819-141941820
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:141929279..141931781-chr2:141938961..141941885,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10169082	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap]
rs10180339	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap]
rs10189024	0.88[CEU][hapmap];0.83[TSI][hapmap]
rs10194319	0.82[CHB][hapmap]
rs1033284	1.00[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs1249429	0.91[CEU][hapmap];0.90[CHB][hapmap];0.92[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1249433	0.81[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs1249448	0.87[EUR][1000 genomes]
rs1249452	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap]
rs1249454	1.00[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap]
rs1249455	0.93[ASW][hapmap];0.96[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap]
rs1249457	0.93[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap]
rs1249458	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs12613639	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs12691594	0.88[CEU][hapmap];0.81[TSI][hapmap]
rs1518800	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap]
rs1543181	0.88[CEU][hapmap];0.83[JPT][hapmap];0.81[TSI][hapmap]
rs16845587	0.83[JPT][hapmap]
rs1714259	0.88[CEU][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs2203809	0.96[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs2222233	1.00[CEU][hapmap];0.82[CHB][hapmap];0.80[CHD][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs4954894	0.82[CHB][hapmap]
rs6711588	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap]
rs6715585	0.82[JPT][hapmap]
rs6757044	0.90[JPT][hapmap]
rs7583934	1.00[CEU][hapmap];0.97[TSI][hapmap];0.86[EUR][1000 genomes]
rs9287313	1.00[CEU][hapmap];0.82[CHB][hapmap];0.83[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv583198	chr2:141510791-142150620	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv817518	chr2:141714174-142287302	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1003799	chr2:141803314-142033675	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1009434	chr2:141832339-142156180	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv875228	chr2:141841920-141949292	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1005236	chr2:141860005-142047695	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv535948	chr2:141860005-142047695	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv875229	chr2:141905052-141951944	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:141941400-141944000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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