Variant report

Variant	rs7573833
Chromosome Location	chr2:153443752-153443753
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:153439236..153441147-chr2:153442384..153444667,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10497107	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10497108	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10497111	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11678890	1.00[JPT][hapmap]
rs13002771	1.00[JPT][hapmap]
rs16823807	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16831392	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16831399	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16831410	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16831413	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17327752	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17399648	1.00[JPT][hapmap]
rs2678299	1.00[JPT][hapmap]
rs3811572	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56220401	1.00[ASN][1000 genomes]
rs59103281	0.94[ASN][1000 genomes]
rs61698095	1.00[ASN][1000 genomes]
rs6434081	1.00[JPT][hapmap]
rs6434082	1.00[JPT][hapmap]
rs6706231	1.00[JPT][hapmap]
rs6749146	1.00[JPT][hapmap]
rs6760321	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7599894	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9753431	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv834420	chr2:153339646-153535460	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153400000-153468200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr2:153403200-153448000	Weak transcription	Lung	lung
3	chr2:153416400-153454200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr2:153416400-153465200	Weak transcription	Left Ventricle	heart
5	chr2:153418800-153444600	Weak transcription	Fetal Brain Male	brain
6	chr2:153423800-153471200	Weak transcription	Fetal Kidney	kidney
7	chr2:153428000-153468200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:153428200-153456000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr2:153429200-153456200	Weak transcription	Spleen	Spleen
10	chr2:153430000-153449400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:153434200-153473600	Weak transcription	Brain Germinal Matrix	brain
12	chr2:153434400-153454400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr2:153435400-153473200	Weak transcription	Right Ventricle	heart
14	chr2:153435600-153455200	Weak transcription	Hela-S3	cervix
15	chr2:153436600-153444800	Enhancers	Muscle Satellite Cultured Cells	--
16	chr2:153438200-153456000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr2:153438400-153444200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr2:153438400-153475400	Weak transcription	Pancreas	Pancrea
19	chr2:153438600-153444800	Weak transcription	Fetal Brain Female	brain
20	chr2:153438600-153456400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr2:153438600-153464000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr2:153438800-153448000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr2:153438800-153454400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr2:153438800-153463800	Weak transcription	Fetal Lung	lung
25	chr2:153439000-153445800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr2:153439000-153445800	Weak transcription	Placenta	Placenta
27	chr2:153439800-153456200	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr2:153440000-153444800	Enhancers	Osteobl	bone
29	chr2:153440200-153444600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr2:153440200-153444600	Enhancers	NH-A	brain
31	chr2:153440200-153445000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr2:153440400-153445000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr2:153440600-153453000	Weak transcription	Fetal Heart	heart
34	chr2:153440800-153445000	Enhancers	NHLF	lung
35	chr2:153441000-153445000	Enhancers	NHDF-Ad	bronchial
36	chr2:153441000-153468000	Weak transcription	Fetal Intestine Large	intestine
37	chr2:153441200-153444400	Weak transcription	Stomach Mucosa	stomach
38	chr2:153441200-153445200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
39	chr2:153441600-153444200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr2:153441800-153444600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr2:153441800-153446200	Enhancers	Brain Hippocampus Middle	brain
42	chr2:153442000-153443800	Enhancers	Psoas Muscle	Psoas
43	chr2:153442000-153444600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr2:153442000-153444600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr2:153442000-153444800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr2:153442000-153446400	Enhancers	Brain Inferior Temporal Lobe	brain
47	chr2:153442000-153446400	Enhancers	HSMMtube	muscle
48	chr2:153442200-153444800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr2:153442400-153443800	Enhancers	Brain Cingulate Gyrus	brain
50	chr2:153442400-153444600	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links