Variant report

Variant	rs17035540
Chromosome Location	chr2:46936894-46936895
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	chr2:46925582..46927235-chr2:46936879..46939303,2	MCF-7	breast:
2	chr2:46924668..46928828-chr2:46932943..46938478,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171150	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11892177	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12104869	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs17772309	0.88[EUR][1000 genomes]
rs17821941	0.94[EUR][1000 genomes]
rs17822668	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17822704	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs41349351	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs41363351	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41478946	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9677705	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014425	chr2:46670179-47033417	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv535678	chr2:46670179-47033417	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv873996	chr2:46670941-47065227	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv533112	chr2:46800828-46959977	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
6	nsv873997	chr2:46821640-46984627	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:46927800-46940000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr2:46928000-46943600	Weak transcription	Thymus	Thymus
3	chr2:46928600-46944400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr2:46928800-46938600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr2:46928800-46946200	Weak transcription	NHEK	skin
6	chr2:46929000-46940200	Weak transcription	Fetal Stomach	stomach
7	chr2:46930000-46938400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr2:46931200-46938800	Weak transcription	Primary B cells from cord blood	blood
9	chr2:46932400-46937000	Enhancers	H1 Cell Line	embryonic stem cell
10	chr2:46932400-46938800	Weak transcription	Primary T cells from cord blood	blood
11	chr2:46932600-46944200	Weak transcription	Aorta	Aorta
12	chr2:46933000-46943600	Weak transcription	Left Ventricle	heart
13	chr2:46933800-46937000	Enhancers	Muscle Satellite Cultured Cells	--
14	chr2:46934000-46937000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr2:46934000-46944200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr2:46934000-46947800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr2:46934400-46943600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr2:46934600-46937200	Enhancers	Osteobl	bone
19	chr2:46934600-46938000	Enhancers	NHDF-Ad	bronchial
20	chr2:46934600-46946400	Weak transcription	HSMM	muscle
21	chr2:46935200-46937000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr2:46935200-46944000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr2:46935800-46937000	Enhancers	Ovary	ovary
24	chr2:46935800-46937200	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr2:46935800-46938000	Weak transcription	NHLF	lung
26	chr2:46936000-46938600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr2:46936000-46941400	Weak transcription	Liver	Liver
28	chr2:46936000-46945000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr2:46936400-46937000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr2:46936400-46940200	Weak transcription	Psoas Muscle	Psoas
31	chr2:46936400-46942200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr2:46936400-46943600	Weak transcription	Pancreas	Pancrea
33	chr2:46936600-46937800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr2:46936600-46939800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr2:46936600-46943600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr2:46936800-46938000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr2:46936800-46938400	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr2:46936800-46938800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr2:46936800-46942800	Weak transcription	NH-A	brain
40	chr2:46936800-46946200	Weak transcription	Skeletal Muscle Male	skeletal muscle

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