Variant report

Variant	rs1197773
Chromosome Location	chr15:42094387-42094388
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	chr15:42073003..42074739-chr15:42093274..42095961,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1043627	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1106934	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11070346	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11070349	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs11547012	0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs11630242	0.90[ASN][1000 genomes]
rs11853665	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11858843	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs1197659	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197662	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs1197668	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs1197687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1197688	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197689	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1197690	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1197770	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1206842	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1209333	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439771	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12440605	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs12591285	0.93[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12595271	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12901742	0.93[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16971915	0.93[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap]
rs1726915	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1918312	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1918313	0.93[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2077361	0.93[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2077543	0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs2241523	0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs2303517	0.81[CEU][hapmap]
rs2412639	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2412640	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs2577949	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28671571	0.94[ASN][1000 genomes]
rs2925340	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34769385	0.84[ASN][1000 genomes]
rs35033220	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35359048	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3816533	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4072386	0.93[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap]
rs4923906	0.91[CEU][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4923907	0.93[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4923913	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4923917	0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs4924573	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57814590	0.83[ASN][1000 genomes]
rs7166139	0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs7168489	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7173779	0.85[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7174099	0.95[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs7175346	0.94[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs7177495	0.86[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs883329	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs890504	0.86[ASN][1000 genomes]
rs9806709	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1054671	chr15:42016097-42098896	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	esv2757597	chr15:42047173-42122617	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	esv2760027	chr15:42047173-42122617	Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
5	nsv904113	chr15:42050390-42118971	Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv904114	chr15:42050390-42119900	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
7	nsv427958	chr15:42051317-42301283	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
8	nsv904115	chr15:42076387-42171483	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
9	nsv904116	chr15:42076387-42229852	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
10	nsv1038393	chr15:42083574-42188035	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
11	esv1827003	chr15:42087505-42199076	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
12	esv1816120	chr15:42093384-42171578	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42070200-42109800	Weak transcription	Fetal Brain Male	brain
2	chr15:42083600-42104600	Weak transcription	Liver	Liver
3	chr15:42083600-42109200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:42083800-42096600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:42083800-42098600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:42083800-42098600	Weak transcription	Pancreas	Pancrea
7	chr15:42083800-42098600	Weak transcription	A549	lung
8	chr15:42083800-42103200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr15:42083800-42103400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr15:42083800-42104400	Weak transcription	Colonic Mucosa	Colon
11	chr15:42083800-42105000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr15:42083800-42119400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:42084000-42098400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr15:42085200-42097400	Weak transcription	Psoas Muscle	Psoas
15	chr15:42088600-42103000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr15:42089000-42096400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr15:42089400-42114800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:42089600-42096600	Weak transcription	Brain Angular Gyrus	brain
19	chr15:42089800-42096400	Weak transcription	Colon Smooth Muscle	Colon
20	chr15:42089800-42096400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr15:42089800-42096800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr15:42090000-42096600	Weak transcription	Aorta	Aorta
23	chr15:42090000-42096600	Weak transcription	Brain Substantia Nigra	brain
24	chr15:42090000-42096600	Weak transcription	Fetal Kidney	kidney
25	chr15:42090000-42096600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr15:42090000-42097400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr15:42090000-42109800	Weak transcription	Small Intestine	intestine
28	chr15:42090600-42101600	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr15:42091000-42094400	Strong transcription	Brain Anterior Caudate	brain
30	chr15:42091000-42096400	Strong transcription	Fetal Stomach	stomach
31	chr15:42091000-42096800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr15:42091400-42096800	Weak transcription	Right Atrium	heart
33	chr15:42091400-42105400	Weak transcription	HSMMtube	muscle
34	chr15:42091600-42094600	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr15:42091600-42094800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr15:42091800-42094400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr15:42091800-42094400	Strong transcription	Brain Inferior Temporal Lobe	brain
38	chr15:42091800-42094600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr15:42091800-42101200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:42092000-42096400	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr15:42092000-42096400	Weak transcription	Right Ventricle	heart
42	chr15:42092000-42097000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr15:42092000-42097600	Weak transcription	NHLF	lung
44	chr15:42092000-42101600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr15:42092200-42094400	Strong transcription	Duodenum Mucosa	Duodenum
46	chr15:42092200-42094600	Strong transcription	Fetal Thymus	thymus
47	chr15:42092200-42099400	Strong transcription	Fetal Intestine Small	intestine
48	chr15:42092200-42109400	Weak transcription	HepG2	liver
49	chr15:42092400-42094600	Strong transcription	Fetal Brain Female	brain
50	chr15:42092400-42096400	Weak transcription	Primary hematopoietic stem cells	blood

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