Variant report

Variant	rs7161909
Chromosome Location	chr15:72551480-72551481
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:72549309..72551782-chr15:72559287..72560861,2	MCF-7	breast:
2	chr15:72544452..72547416-chr15:72550112..72551734,3	MCF-7	breast:
3	chr15:72548498..72554612-chr15:72558312..72566000,13	MCF-7	breast:
4	chr15:72519778..72525226-chr15:72547384..72553620,8	MCF-7	breast:
5	chr15:72511264..72514966-chr15:72550675..72553290,3	MCF-7	breast:
6	chr15:72549975..72552045-chr15:72561335..72563310,2	K562	blood:
7	chr15:72550392..72553636-chr15:72562522..72566048,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137817	Chromatin interaction
ENSG00000067225	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs11072354	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11072355	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs12438532	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12438836	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439392	0.99[ASN][1000 genomes]
rs12439580	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440204	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs12440435	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12440927	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs12441246	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12443329	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12591975	0.87[EUR][1000 genomes]
rs12592785	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12593082	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12594297	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12911449	1.00[CEU][hapmap]
rs1426168	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16953770	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16956599	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16956602	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16956723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2288256	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[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]
rs2305705	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs28576571	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28694144	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2912226	1.00[CEU][hapmap]
rs2912229	1.00[CEU][hapmap]
rs2959915	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs34625473	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs35949555	0.87[EUR][1000 genomes]
rs3803388	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4442765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61481811	0.87[EUR][1000 genomes]
rs6495000	1.00[CEU][hapmap]
rs67849115	1.00[EUR][1000 genomes]
rs7165735	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167257	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171446	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs7175907	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7178613	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs8025332	0.87[EUR][1000 genomes]
rs8026894	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.88[ASN][1000 genomes]
rs8029218	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs8039245	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs8043345	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8192363	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8192381	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
3	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
4	nsv1601	chr15:72549885-72585176	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72530400-72563400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:72530800-72561200	Strong transcription	Adipose Nuclei	Adipose
3	chr15:72531000-72562400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr15:72531000-72563000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr15:72531000-72563000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr15:72531000-72563400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr15:72531200-72562800	Strong transcription	Fetal Muscle Leg	muscle
8	chr15:72531800-72561400	Strong transcription	Stomach Smooth Muscle	stomach
9	chr15:72532000-72562600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr15:72532200-72561000	Strong transcription	Liver	Liver
11	chr15:72532200-72561000	Strong transcription	Fetal Intestine Large	intestine
12	chr15:72532200-72561600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr15:72532200-72562200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:72532200-72563000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr15:72532400-72562600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:72532600-72562200	Strong transcription	Brain Anterior Caudate	brain
17	chr15:72532600-72562800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr15:72532800-72563000	Strong transcription	HSMM	muscle
19	chr15:72533000-72562000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr15:72533200-72562400	Strong transcription	Hela-S3	cervix
21	chr15:72533200-72562600	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr15:72536600-72564000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr15:72537200-72564200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr15:72537600-72563400	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr15:72538600-72561200	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr15:72538800-72562000	Strong transcription	Skeletal Muscle Female	skeletal muscle
27	chr15:72539000-72562200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr15:72539200-72556600	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr15:72539200-72562200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr15:72539400-72553400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr15:72539400-72561200	Strong transcription	Left Ventricle	heart
32	chr15:72539400-72561600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr15:72539400-72562600	Strong transcription	Osteobl	bone
34	chr15:72539600-72561200	Strong transcription	Brain Germinal Matrix	brain
35	chr15:72539600-72562800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:72539800-72562800	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr15:72540200-72560000	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr15:72540200-72561400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr15:72540200-72561600	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr15:72540200-72561600	Strong transcription	HSMMtube	muscle
41	chr15:72540200-72562800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr15:72540200-72563200	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr15:72540400-72556600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr15:72540400-72560600	Strong transcription	Ovary	ovary
45	chr15:72540400-72561000	Strong transcription	Fetal Lung	lung
46	chr15:72540400-72561600	Strong transcription	Placenta Amnion	Placenta Amnion
47	chr15:72540400-72562800	Strong transcription	A549	lung
48	chr15:72540400-72563400	Strong transcription	Fetal Muscle Trunk	muscle
49	chr15:72540600-72556600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr15:72540600-72556600	Strong transcription	HMEC	breast

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