Variant report

Variant	rs7168558
Chromosome Location	chr15:39921938-39921939
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:39921577..39922712-chr15:39960446..39961289,4	MCF-7	breast:
2	chr15:39871401..39883645-chr15:39918779..39926575,24	MCF-7	breast:
3	chr15:39872729..39875575-chr15:39921037..39923866,5	MCF-7	breast:
4	chr15:39921577..39922481-chr15:39960668..39961289,3	MCF-7	breast:
5	chr15:39603952..39606127-chr15:39921042..39922610,2	MCF-7	breast:
6	chr15:39921354..39922952-chr3:64065874..64067555,2	MCF-7	breast:
7	chr15:39909459..39912628-chr15:39921888..39923922,3	MCF-7	breast:
8	chr15:39920700..39923129-chr15:39958970..39962199,4	MCF-7	breast:
9	chr15:39887137..39895767-chr15:39912868..39924962,20	MCF-7	breast:
10	chr15:39890030..39893862-chr15:39920684..39923175,4	MCF-7	breast:
11	chr15:39913171..39923947-chr15:39954798..39966806,32	MCF-7	breast:
12	chr15:39921225..39923942-chr15:39930395..39933053,2	MCF-7	breast:
13	chr15:39921489..39922463-chr15:39960386..39961014,2	MCF-7	breast:
14	chr15:39904208..39905755-chr15:39920256..39923195,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000150667	Chromatin interaction
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10520139	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16969468	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16969529	1.00[AMR][1000 genomes]
rs16969544	1.00[ASN][1000 genomes]
rs16969546	1.00[ASN][1000 genomes]
rs16969550	1.00[ASN][1000 genomes]
rs16969552	1.00[ASN][1000 genomes]
rs16969553	1.00[ASN][1000 genomes]
rs16969554	1.00[ASN][1000 genomes]
rs16969556	1.00[ASN][1000 genomes]
rs16969559	1.00[ASN][1000 genomes]
rs16969560	1.00[ASN][1000 genomes]
rs16969563	1.00[ASN][1000 genomes]
rs4468582	0.94[YRI][hapmap];0.94[AFR][1000 genomes]
rs57588844	1.00[ASN][1000 genomes]
rs57832843	1.00[AMR][1000 genomes]
rs58098811	1.00[ASN][1000 genomes]
rs58813139	1.00[ASN][1000 genomes]
rs61614874	1.00[ASN][1000 genomes]
rs7171103	1.00[ASN][1000 genomes]
rs7179020	1.00[ASN][1000 genomes]
rs73393229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73393230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73393232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73393237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73393242	1.00[AMR][1000 genomes]
rs73393273	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7494926	1.00[ASN][1000 genomes]
rs7498087	1.00[ASN][1000 genomes]
rs8028707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8040412	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs937959	0.81[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv1048628	chr15:39877498-39940104	Enhancers Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1502	chr15:39884314-39928968	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39913200-39924000	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr15:39913400-39922400	Enhancers	Fetal Intestine Large	intestine
3	chr15:39913400-39923800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr15:39914000-39922800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr15:39914200-39922600	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr15:39914600-39922800	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr15:39914600-39923600	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr15:39914600-39923600	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr15:39914600-39923800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr15:39914800-39923800	Enhancers	Primary T cells fromperipheralblood	blood
11	chr15:39916000-39922200	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr15:39916000-39924000	Enhancers	HMEC	breast
13	chr15:39916200-39922200	Enhancers	Left Ventricle	heart
14	chr15:39916200-39923400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr15:39916400-39937800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:39917400-39923800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr15:39917600-39926200	Weak transcription	Esophagus	oesophagus
18	chr15:39918000-39922200	Enhancers	HepG2	liver
19	chr15:39918800-39923400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:39919400-39922000	Enhancers	Fetal Muscle Leg	muscle
21	chr15:39919400-39922400	Enhancers	Duodenum Mucosa	Duodenum
22	chr15:39919400-39922600	Enhancers	Fetal Lung	lung
23	chr15:39919400-39922600	Enhancers	GM12878-XiMat	blood
24	chr15:39919400-39923000	Enhancers	Fetal Brain Male	brain
25	chr15:39919800-39922000	Enhancers	Rectal Mucosa Donor 29	rectum
26	chr15:39920000-39922000	Enhancers	Small Intestine	intestine
27	chr15:39920000-39922200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr15:39920000-39922200	Enhancers	Right Atrium	heart
29	chr15:39920000-39923400	Enhancers	Sigmoid Colon	Sigmoid Colon
30	chr15:39920000-39923600	Enhancers	HUVEC	blood vessel
31	chr15:39920000-39924400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:39920200-39922000	Enhancers	NHLF	lung
33	chr15:39920200-39922800	Enhancers	Fetal Thymus	thymus
34	chr15:39920200-39924400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr15:39920400-39922000	Enhancers	Fetal Stomach	stomach
36	chr15:39920400-39922000	Enhancers	HSMM	muscle
37	chr15:39920400-39922200	Enhancers	Duodenum Smooth Muscle	Duodenum
38	chr15:39920600-39922400	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr15:39920600-39924200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr15:39920800-39922000	Enhancers	Adipose Nuclei	Adipose
41	chr15:39920800-39922000	Weak transcription	Fetal Kidney	kidney
42	chr15:39920800-39922200	Enhancers	Colon Smooth Muscle	Colon
43	chr15:39920800-39922800	Enhancers	Primary T cells from cord blood	blood
44	chr15:39920800-39924400	Enhancers	NHEK	skin
45	chr15:39920800-39925200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr15:39921000-39922000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr15:39921000-39922000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr15:39921000-39922000	Enhancers	Thymus	Thymus
49	chr15:39921000-39922200	Enhancers	Primary hematopoietic stem cells	blood
50	chr15:39921000-39922200	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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