Variant report

Variant	rs6495056
Chromosome Location	chr15:73417565-73417566
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	chr15:73414003..73415548-chr15:73416119..73418853,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067141	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11072404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12592184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12903941	0.85[GIH][hapmap];0.82[JPT][hapmap]
rs1320241	1.00[CEU][hapmap];0.88[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1479336	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs1620369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1621216	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1631796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1678246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1678247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16957640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1871387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2619257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2619258	0.93[ASN][1000 genomes]
rs2623989	0.85[ASN][1000 genomes]
rs2623991	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2660825	1.00[CEU][hapmap]
rs2660828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2680345	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2680346	1.00[CEU][hapmap]
rs28462360	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4564531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4570800	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4776627	0.94[ASN][1000 genomes]
rs484544	1.00[CEU][hapmap]
rs489873	1.00[CEU][hapmap]
rs499098	1.00[CEU][hapmap];0.82[CHD][hapmap]
rs525587	1.00[CEU][hapmap]
rs529004	1.00[CEU][hapmap]
rs55787640	0.83[ASN][1000 genomes]
rs561929	1.00[CEU][hapmap]
rs56402186	0.93[ASN][1000 genomes]
rs56753901	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60685845	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66466251	0.94[ASN][1000 genomes]
rs66881913	0.83[ASN][1000 genomes]
rs66931013	0.86[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs67178516	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67928653	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67999476	0.81[ASN][1000 genomes]
rs68053508	0.83[ASN][1000 genomes]
rs68123262	0.85[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7163504	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7168651	0.86[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7168829	0.96[ASN][1000 genomes]
rs7170328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7177002	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7177629	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72739445	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8033192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8037761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs8039308	0.87[ASN][1000 genomes]
rs8041219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9806271	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv904339	chr15:73375847-73483718	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv904340	chr15:73375847-73524629	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904341	chr15:73390790-73483718	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv904342	chr15:73390790-73524629	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73388800-73431200	Weak transcription	Rectal Smooth Muscle	rectum
2	chr15:73393200-73422400	Weak transcription	Aorta	Aorta
3	chr15:73396400-73444600	Weak transcription	Psoas Muscle	Psoas
4	chr15:73400400-73434200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr15:73401200-73423000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:73401200-73428200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr15:73401400-73419600	Weak transcription	Brain Angular Gyrus	brain
8	chr15:73401400-73422400	Weak transcription	Pancreas	Pancrea
9	chr15:73401400-73422800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:73401400-73480200	Weak transcription	Right Ventricle	heart
11	chr15:73403000-73443400	Weak transcription	Fetal Kidney	kidney
12	chr15:73404200-73425800	Weak transcription	Small Intestine	intestine
13	chr15:73404200-73442600	Weak transcription	Left Ventricle	heart
14	chr15:73406600-73422400	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr15:73406600-73423200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:73406600-73425200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr15:73406600-73432600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr15:73406800-73418600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr15:73406800-73419600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:73407400-73431600	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr15:73408000-73443400	Weak transcription	Adipose Nuclei	Adipose
22	chr15:73408800-73424600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:73409200-73422800	Weak transcription	Fetal Muscle Trunk	muscle
24	chr15:73409200-73429200	Weak transcription	Esophagus	oesophagus
25	chr15:73410000-73418800	Weak transcription	Brain Anterior Caudate	brain
26	chr15:73410600-73434600	Weak transcription	Liver	Liver
27	chr15:73410800-73431400	Weak transcription	Colon Smooth Muscle	Colon
28	chr15:73412600-73417600	Weak transcription	Brain Germinal Matrix	brain
29	chr15:73413200-73437200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:73413400-73434200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr15:73413600-73446400	Weak transcription	Stomach Smooth Muscle	stomach
32	chr15:73413800-73418000	Weak transcription	Fetal Brain Male	brain
33	chr15:73414000-73428200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr15:73414000-73437000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr15:73414000-73440000	Weak transcription	Fetal Brain Female	brain
36	chr15:73414200-73419400	Weak transcription	Brain Hippocampus Middle	brain
37	chr15:73414200-73428600	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr15:73414200-73445600	Weak transcription	Brain Substantia Nigra	brain
39	chr15:73414400-73458200	Weak transcription	Colonic Mucosa	Colon
40	chr15:73414600-73419800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr15:73414600-73436600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:73414800-73420800	Strong transcription	Fetal Intestine Large	intestine
43	chr15:73414800-73421800	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr15:73415000-73425400	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr15:73415200-73422800	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr15:73415400-73423800	Weak transcription	Fetal Heart	heart
47	chr15:73415400-73446600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr15:73415600-73428400	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr15:73416000-73418600	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr15:73416000-73420200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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