Variant report

Variant	rs7549917
Chromosome Location	chr1:90854065-90854066
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	chr1:90852283..90854067-chr1:90856545..90859421,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12090317	0.81[AFR][1000 genomes]
rs12092500	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12095022	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57222141	1.00[AMR][1000 genomes]
rs6657163	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74099403	1.00[AMR][1000 genomes]
rs74099406	1.00[AMR][1000 genomes]
rs74099407	1.00[AMR][1000 genomes]
rs74099412	1.00[AMR][1000 genomes]
rs74099413	1.00[AMR][1000 genomes]
rs74099422	1.00[AMR][1000 genomes]
rs74099428	1.00[AMR][1000 genomes]
rs74099431	1.00[AMR][1000 genomes]
rs74099432	1.00[AMR][1000 genomes]
rs74099434	1.00[AMR][1000 genomes]
rs74099437	1.00[AMR][1000 genomes]
rs74099605	1.00[AMR][1000 genomes]
rs74102642	1.00[AMR][1000 genomes]
rs74102645	1.00[AMR][1000 genomes]
rs7539781	0.95[AFR][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	nsv1000787	chr1:90809476-90874481	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv3394726	chr1:90811671-91019675	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	esv1801569	chr1:90819992-90983299	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	esv1808806	chr1:90819992-90983299	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	esv1822918	chr1:90819992-90983299	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	esv1850863	chr1:90819992-90983299	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	esv2757740	chr1:90819992-90983299	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	esv2758949	chr1:90819992-90983299	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv427697	chr1:90819992-90983299	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv428124	chr1:90819992-90983299	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	esv1811797	chr1:90819992-91008105	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv432487	chr1:90824652-90931765	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:90851600-90854400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:90852200-90854200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr1:90852400-90854200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:90852400-90854200	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr1:90852800-90854200	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr1:90853000-90854200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:90853000-90854200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:90853200-90858600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:90853400-90854200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:90853400-90854200	Enhancers	Brain Cingulate Gyrus	brain
11	chr1:90853600-90856200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:90853600-90856400	Weak transcription	NH-A	brain
13	chr1:90853600-90856400	Weak transcription	NHEK	skin
14	chr1:90853600-90858600	Weak transcription	HMEC	breast
15	chr1:90853600-90858600	Weak transcription	HSMM	muscle
16	chr1:90853800-90856600	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr1:90853800-90858800	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links