Variant report

Variant	rs73953284
Chromosome Location	chr2:127949777-127949778
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	chr2:127947734..127951220-chr2:127951984..127955891,4	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs35075135	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55897983	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55912480	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56096327	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56911251	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953271	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953273	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953278	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953279	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953280	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953282	1.00[AMR][1000 genomes]
rs73953286	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953287	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953288	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953289	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953292	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73953302	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73956513	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73956524	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73956527	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999422	chr2:127464647-127956543	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1006112	chr2:127830117-128032546	Transcr. at gene 5' and 3' Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	esv2757832	chr2:127830943-128006514	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	esv2759090	chr2:127830943-128006514	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1011378	chr2:127841930-128020546	Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv999809	chr2:127841930-128032546	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv1010669	chr2:127848860-128032546	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1003599	chr2:127871183-128059407	Strong transcription Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
9	nsv535920	chr2:127871183-128059407	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:127934600-127955000	Weak transcription	NHEK	skin
2	chr2:127934600-127965600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:127941000-127963000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr2:127943000-127959400	Weak transcription	Gastric	stomach
5	chr2:127944000-127952800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr2:127944200-127950400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr2:127944200-127951800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr2:127945200-127950600	Weak transcription	Fetal Lung	lung
9	chr2:127945400-127950200	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr2:127945400-127951000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr2:127945400-127951200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr2:127945600-127951400	Weak transcription	Fetal Intestine Small	intestine
13	chr2:127945800-127950000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr2:127945800-127950200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr2:127946600-127950800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr2:127947000-127951400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr2:127947800-127950600	Weak transcription	Fetal Intestine Large	intestine
18	chr2:127947800-127951000	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr2:127947800-127951200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr2:127947800-127951600	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr2:127948600-127950800	Strong transcription	Fetal Stomach	stomach
22	chr2:127948600-127959400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr2:127948800-127973400	Weak transcription	HMEC	breast
24	chr2:127949000-127950400	Strong transcription	Fetal Muscle Leg	muscle
25	chr2:127949000-127950800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr2:127949000-127951000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr2:127949200-127950800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr2:127949400-127950200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr2:127949400-127950600	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr2:127949400-127951000	Weak transcription	Psoas Muscle	Psoas
31	chr2:127949600-127949800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr2:127949600-127949800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links