Variant report

Variant	rs17035939
Chromosome Location	chr4:106526544-106526545
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106524640..106526715-chr4:106568646..106571321,2	MCF-7	breast:

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10017111	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10023798	1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10032269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516520	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516521	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10516524	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11097896	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11721732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11721842	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730080	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730082	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11735213	1.00[YRI][hapmap]
rs11735330	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11931966	1.00[YRI][hapmap]
rs11933060	1.00[YRI][hapmap]
rs11933130	1.00[YRI][hapmap]
rs11936307	1.00[YRI][hapmap]
rs11936813	1.00[YRI][hapmap]
rs11944125	1.00[YRI][hapmap]
rs11945534	1.00[YRI][hapmap]
rs11946460	1.00[YRI][hapmap]
rs1294671	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1447097	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035915	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035936	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]
rs17035951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17259503	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17259931	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17260120	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17260183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17260856	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17261094	0.82[ASN][1000 genomes]
rs17261786	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17262443	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17262457	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17263714	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17325276	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17326919	0.82[ASN][1000 genomes]
rs17327234	0.82[ASN][1000 genomes]
rs1862081	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2098571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2112047	1.00[CHB][hapmap]
rs2112049	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2305212	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2544401	1.00[JPT][hapmap]
rs2544402	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544403	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544424	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544426	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544429	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553446	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553448	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553451	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553464	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553466	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553467	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553470	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553471	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28402213	0.89[EUR][1000 genomes]
rs28536076	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3796920	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3796923	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4324546	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]
rs4324547	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4326019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4407508	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4588463	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs58412572	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59936741	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6833345	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72669979	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72669984	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73837046	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7666969	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7676226	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7681991	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7687176	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7698817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs961472	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs961473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][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:23 , 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	chr4:106521200-106526800	Weak transcription	Stomach Mucosa	stomach
5	chr4:106521400-106526800	Weak transcription	Fetal Intestine Small	intestine
6	chr4:106521600-106526600	Weak transcription	Fetal Heart	heart
7	chr4:106521800-106545600	Weak transcription	Right Atrium	heart
8	chr4:106523800-106528800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:106524600-106540400	Weak transcription	Pancreas	Pancrea
10	chr4:106525400-106558600	Weak transcription	Fetal Intestine Large	intestine
11	chr4:106526200-106527000	Enhancers	Brain Germinal Matrix	brain
12	chr4:106526200-106527400	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr4:106526400-106526800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr4:106526400-106526800	Enhancers	Small Intestine	intestine
15	chr4:106526400-106527200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr4:106526400-106527200	Enhancers	GM12878-XiMat	blood
17	chr4:106526400-106527200	Enhancers	HMEC	breast
18	chr4:106526400-106527200	Enhancers	HSMMtube	muscle
19	chr4:106526400-106527200	Enhancers	NHEK	skin
20	chr4:106526400-106527400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr4:106526400-106527400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr4:106526400-106527400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr4:106526400-106527400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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