Variant report

Variant	rs1617785
Chromosome Location	chr13:95750002-95750003
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	chr13:95739447..95741591-chr13:95747968..95750344,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1080482	1.00[JPT][hapmap]
rs12584534	0.95[CHB][hapmap];0.86[CHD][hapmap];0.80[ASN][1000 genomes]
rs1628382	0.95[CHB][hapmap];0.94[CHD][hapmap];0.84[ASN][1000 genomes]
rs1630807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1678344	0.81[ASN][1000 genomes]
rs1678352	0.98[ASN][1000 genomes]
rs1678354	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1678363	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1678366	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1729759	1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.82[MEX][hapmap];0.96[ASN][1000 genomes]
rs1729760	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1729775	0.95[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];0.80[TSI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1750190	0.81[CHB][hapmap]
rs1751059	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs1751062	0.82[ASN][1000 genomes]
rs2127295	0.82[CEU][hapmap];0.83[GIH][hapmap];0.87[MEX][hapmap];0.81[AMR][1000 genomes]
rs2127296	0.81[AMR][1000 genomes]
rs2698243	0.85[CEU][hapmap]
rs2766481	0.83[MEX][hapmap]
rs35074427	0.90[ASN][1000 genomes]
rs3782949	0.90[JPT][hapmap]
rs4148527	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4148530	0.85[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap]
rs4148532	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs6650282	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7331308	0.81[AMR][1000 genomes]
rs8001657	0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][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	nsv832688	chr13:95633193-95780198	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:95683200-95751800	Weak transcription	Fetal Lung	lung
2	chr13:95723800-95760000	Weak transcription	Colon Smooth Muscle	Colon
3	chr13:95724000-95751800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr13:95724000-95760600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr13:95727000-95752600	Weak transcription	HSMM	muscle
6	chr13:95727000-95791600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr13:95727000-95812000	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr13:95727600-95761000	Weak transcription	K562	blood
9	chr13:95727800-95767800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr13:95728400-95778800	Weak transcription	Ovary	ovary
11	chr13:95728600-95776000	Weak transcription	Gastric	stomach
12	chr13:95731200-95791600	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr13:95731600-95756000	Weak transcription	Stomach Smooth Muscle	stomach
14	chr13:95731600-95756600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr13:95732800-95751800	Weak transcription	Primary T cells from cord blood	blood
16	chr13:95733800-95751600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr13:95740400-95752200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr13:95740400-95753000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr13:95740400-95756600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr13:95740600-95752800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr13:95740600-95772200	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr13:95740800-95791200	Weak transcription	NHLF	lung
23	chr13:95741000-95756800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr13:95741400-95763400	Weak transcription	Left Ventricle	heart
25	chr13:95741600-95772600	Weak transcription	Primary hematopoietic stem cells	blood
26	chr13:95741800-95751200	Weak transcription	HUVEC	blood vessel
27	chr13:95742600-95750200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr13:95742800-95755200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr13:95744200-95765200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr13:95746800-95752400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr13:95747400-95751800	Weak transcription	NHDF-Ad	bronchial
32	chr13:95748000-95751000	ZNF genes & repeats	A549	lung
33	chr13:95749600-95761000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr13:95749800-95751800	Weak transcription	GM12878-XiMat	blood
35	chr13:95750000-95750400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr13:95750000-95750400	ZNF genes & repeats	Fetal Intestine Small	intestine
37	chr13:95750000-95750400	ZNF genes & repeats	Lung	lung
38	chr13:95750000-95753200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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