Variant report

Variant	rs17259931
Chromosome Location	chr4:106527400-106527401
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106524514..106526523-chr4:106526666..106529139,3	MCF-7	breast:

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10017111	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10023798	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10032269	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10516520	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10516521	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10516524	1.00[JPT][hapmap]
rs11097896	1.00[JPT][hapmap]
rs11721732	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11721842	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11730080	1.00[ASN][1000 genomes]
rs11730082	1.00[ASN][1000 genomes]
rs11730825	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11735330	1.00[ASN][1000 genomes]
rs1294671	1.00[JPT][hapmap]
rs1447097	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17035915	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17035936	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17035939	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17035951	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17036025	0.82[AFR][1000 genomes]
rs17259503	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17260120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17260183	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17260856	1.00[JPT][hapmap]
rs17261094	0.82[ASN][1000 genomes]
rs17261786	1.00[JPT][hapmap]
rs17262443	1.00[JPT][hapmap]
rs17262457	1.00[JPT][hapmap]
rs17263714	1.00[JPT][hapmap]
rs17325276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17326919	0.82[ASN][1000 genomes]
rs17327234	0.82[ASN][1000 genomes]
rs1862081	1.00[JPT][hapmap]
rs2098571	1.00[JPT][hapmap]
rs2112049	1.00[JPT][hapmap]
rs2193857	1.00[JPT][hapmap]
rs2305212	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2544401	1.00[JPT][hapmap]
rs2544402	1.00[JPT][hapmap]
rs2544403	1.00[JPT][hapmap]
rs2544424	1.00[JPT][hapmap]
rs2544426	1.00[JPT][hapmap]
rs2544429	1.00[JPT][hapmap]
rs2553446	1.00[JPT][hapmap]
rs2553448	1.00[JPT][hapmap]
rs2553451	1.00[JPT][hapmap]
rs2553464	1.00[JPT][hapmap]
rs2553466	1.00[JPT][hapmap]
rs2553467	1.00[JPT][hapmap]
rs2553470	1.00[JPT][hapmap]
rs2553471	1.00[JPT][hapmap]
rs28536076	0.94[ASN][1000 genomes]
rs3796920	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs3796923	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4324546	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4324547	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4326019	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4407508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4588463	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58412572	1.00[ASN][1000 genomes]
rs59936741	1.00[ASN][1000 genomes]
rs6833345	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs72669979	1.00[ASN][1000 genomes]
rs72669984	0.91[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs72669986	0.85[AFR][1000 genomes]
rs73837046	1.00[ASN][1000 genomes]
rs7666969	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7676226	1.00[JPT][hapmap]
rs7681991	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7687176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7698817	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs961472	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs961473	1.00[JPT][hapmap];0.83[YRI][hapmap];0.97[AFR][1000 genomes];0.94[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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106509000-106540400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:106516000-106553000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:106516400-106545600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr4:106521800-106545600	Weak transcription	Right Atrium	heart
5	chr4:106523800-106528800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr4:106524600-106540400	Weak transcription	Pancreas	Pancrea
7	chr4:106525400-106558600	Weak transcription	Fetal Intestine Large	intestine
8	chr4:106526200-106527400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr4:106526400-106527400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr4:106526400-106527400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:106526400-106527400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr4:106526400-106527400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:106526600-106527400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr4:106526600-106527400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr4:106526800-106527400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr4:106526800-106527400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr4:106526800-106527400	Enhancers	Fetal Lung	lung
18	chr4:106526800-106527400	Enhancers	Stomach Mucosa	stomach
19	chr4:106527200-106534400	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr4:106527200-106559000	Weak transcription	Fetal Intestine Small	intestine
21	chr4:106527400-106531400	Weak transcription	Stomach Mucosa	stomach
22	chr4:106527400-106542000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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