Variant report

Variant	rs4845352
Chromosome Location	chr1:153496819-153496820
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:153491196..153497339-chr1:153538209..153542553,6	MCF-7	breast:
2	chr1:153496118..153498124-chr1:153507716..153509971,2	K562	blood:
3	chr1:153495315..153497702-chr1:153498619..153501151,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196754	Chromatin interaction
ENSG00000197956	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs16835366	0.88[JPT][hapmap]
rs16835368	0.88[JPT][hapmap]
rs16835382	1.00[JPT][hapmap]
rs16835393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17695220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1887039	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2094217	0.97[EUR][1000 genomes]
rs2094737	0.97[EUR][1000 genomes]
rs2094738	0.98[EUR][1000 genomes]
rs2248745	0.84[EUR][1000 genomes]
rs2262587	0.97[EUR][1000 genomes]
rs2339696	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2480695	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs2480696	0.82[EUR][1000 genomes]
rs28410699	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28464843	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28483109	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs28543999	0.88[AFR][1000 genomes]
rs28632016	0.83[ASN][1000 genomes]
rs28635377	0.83[ASN][1000 genomes]
rs2879553	0.88[JPT][hapmap]
rs3762262	0.84[EUR][1000 genomes]
rs4017737	0.92[CEU][hapmap]
rs4272569	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4430277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs477339	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs4845351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4845549	1.00[JPT][hapmap]
rs4845550	1.00[JPT][hapmap]
rs4845552	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs4845553	0.83[ASN][1000 genomes]
rs4845554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4845555	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs532652	0.92[CEU][hapmap];0.86[CHB][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs550597	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs552446	0.84[EUR][1000 genomes]
rs585215	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs6587743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6587745	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6587746	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs659403	0.86[CEU][hapmap];0.84[EUR][1000 genomes]
rs6659755	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6672390	0.88[JPT][hapmap]
rs6684970	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6690638	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6690712	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7515940	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7518306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7520093	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7521972	0.80[AFR][1000 genomes]
rs7534343	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7534347	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7534830	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7537898	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7544359	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9426945	0.97[EUR][1000 genomes]
rs9427239	0.92[CEU][hapmap];0.86[CHB][hapmap];0.97[EUR][1000 genomes]
rs9427287	0.97[EUR][1000 genomes]
rs9436095	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
4	nsv831603	chr1:153405842-153576143	Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	148 gene(s)	inside rSNPs	diseases
5	nsv1007306	chr1:153413827-153541798	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153481200-153503600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr1:153483800-153497800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr1:153488600-153498200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr1:153488800-153497800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:153489000-153497800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:153489000-153497800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr1:153489000-153498000	Weak transcription	Esophagus	oesophagus
8	chr1:153489000-153498000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr1:153489000-153506000	Weak transcription	Gastric	stomach
10	chr1:153489400-153498200	Weak transcription	Hela-S3	cervix
11	chr1:153491800-153498400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr1:153492000-153499200	Weak transcription	Fetal Thymus	thymus
13	chr1:153492400-153498400	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr1:153493000-153499400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr1:153493600-153497800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr1:153493600-153497800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr1:153493600-153497800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr1:153493600-153497800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr1:153493600-153497800	Weak transcription	K562	blood
20	chr1:153493600-153498000	Weak transcription	Pancreas	Pancrea
21	chr1:153493600-153504000	Weak transcription	Colonic Mucosa	Colon
22	chr1:153493800-153497400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr1:153493800-153497400	Weak transcription	NHEK	skin
24	chr1:153493800-153497800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr1:153493800-153498000	Weak transcription	Placenta	Placenta
26	chr1:153494000-153497200	Weak transcription	HMEC	breast
27	chr1:153494000-153497400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr1:153494000-153497800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr1:153494000-153498200	Weak transcription	Duodenum Mucosa	Duodenum
30	chr1:153494200-153498000	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr1:153495400-153497800	Weak transcription	HUVEC	blood vessel
32	chr1:153495400-153498000	Weak transcription	Fetal Intestine Small	intestine
33	chr1:153495600-153498000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr1:153495600-153498000	Weak transcription	Fetal Intestine Large	intestine
35	chr1:153495600-153498200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr1:153495600-153504800	Weak transcription	Spleen	Spleen
37	chr1:153495800-153498400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr1:153496200-153497400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr1:153496800-153500800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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