Variant report

Variant	rs539502961
Chromosome Location	chr1:169903510-169903511
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169883530..169886106-chr1:169901752..169904376,3	K562	blood:
2	chr1:169898316..169900651-chr1:169903000..169904751,2	K562	blood:
3	chr1:169860365..169863802-chr1:169902105..169905662,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000000457	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	esv1845220	chr1:169782006-169933886	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1007190	chr1:169890542-169929582	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv997360	chr1:169892284-169946436	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1015110	chr1:169892661-169929582	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1013271	chr1:169892661-169960549	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1010007	chr1:169895282-169946436	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv1003588	chr1:169895984-169946436	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv998382	chr1:169899427-169929582	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1011978	chr1:169899427-169946436	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv997289	chr1:169899427-169960549	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv1012520	chr1:169899427-169969444	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv1003803	chr1:169901733-169929582	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv1001670	chr1:169901733-169956450	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv1004999	chr1:169901733-169960549	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv1009843	chr1:169903077-169950341	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169876200-169903600	Weak transcription	Aorta	Aorta
2	chr1:169878400-169946200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr1:169884200-169913000	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr1:169885400-169913200	Weak transcription	Ovary	ovary
5	chr1:169886400-169913000	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr1:169886600-169915600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr1:169887000-169911400	Weak transcription	Left Ventricle	heart
8	chr1:169890800-169906200	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr1:169891000-169911400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr1:169891000-169913200	Weak transcription	Adipose Nuclei	Adipose
11	chr1:169899200-169911400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr1:169901400-169903600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr1:169901400-169913000	Weak transcription	Fetal Stomach	stomach
14	chr1:169901400-169913200	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr1:169902600-169904000	Enhancers	Hela-S3	cervix
16	chr1:169902800-169904000	Enhancers	NHDF-Ad	bronchial
17	chr1:169903000-169903800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:169903000-169904000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr1:169903000-169904000	Enhancers	Osteobl	bone
20	chr1:169903000-169904200	Enhancers	NH-A	brain
21	chr1:169903200-169903600	Enhancers	Fetal Kidney	kidney
22	chr1:169903200-169903800	Enhancers	Placenta Amnion	Placenta Amnion
23	chr1:169903200-169904000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr1:169903200-169904000	Enhancers	Fetal Heart	heart
25	chr1:169903200-169904000	Enhancers	NHLF	lung
26	chr1:169903200-169904600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:169903200-169904600	Enhancers	Muscle Satellite Cultured Cells	--
28	chr1:169903200-169904600	Enhancers	Fetal Lung	lung
29	chr1:169903400-169904000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:169903400-169904200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr1:169903400-169904200	Enhancers	A549	lung
32	chr1:169903400-169904200	Enhancers	HUVEC	blood vessel
33	chr1:169903400-169904800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links