Variant report

Variant	rs17398704
Chromosome Location	chr2:153161715-153161716
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10930958	0.82[CEU][hapmap];0.84[TSI][hapmap]
rs12467850	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13000396	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17326628	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs17326796	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17398329	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs17398676	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1962276	1.00[ASW][hapmap];0.81[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];0.93[TSI][hapmap]
rs2345639	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs2345878	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4311022	0.84[MEX][hapmap]
rs4519464	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4664100	0.84[MEX][hapmap]
rs4664536	0.87[TSI][hapmap]
rs5008216	0.84[MEX][hapmap]
rs55677048	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55837285	0.81[EUR][1000 genomes]
rs55860423	0.91[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs56111292	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56187233	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56313461	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62174961	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6650771	0.82[CEU][hapmap]
rs6722740	0.80[GIH][hapmap];0.92[MEX][hapmap]
rs6732917	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6738680	0.82[CEU][hapmap]
rs6742259	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs6759036	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7557426	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7583872	0.80[GIH][hapmap];0.92[MEX][hapmap]
rs7603232	0.82[CEU][hapmap];0.84[MEX][hapmap];0.87[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875288	chr2:152716628-153183646	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv875289	chr2:152720030-153183646	Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	esv3693434	chr2:152998467-153208713	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv437299	chr2:153157043-153170391	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153160800-153161800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:153160800-153161800	Enhancers	Placenta	Placenta
3	chr2:153161000-153161800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:153161000-153161800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr2:153161000-153161800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr2:153161000-153161800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr2:153161000-153161800	Enhancers	A549	lung
8	chr2:153161000-153161800	Enhancers	NHEK	skin
9	chr2:153161000-153162000	Enhancers	HMEC	breast
10	chr2:153161400-153161800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr2:153161600-153164400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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