Variant report

Variant	rs16828351
Chromosome Location	chr2:151446187-151446188
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:151340454..151344785-chr2:151441787..151446724,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115963	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10198421	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16828340	0.83[YRI][hapmap];0.83[AFR][1000 genomes]
rs16828344	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16828361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv532473	chr2:151164210-151701860	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv834415	chr2:151374254-151558649	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:151442600-151446600	Enhancers	Fetal Brain Male	brain
2	chr2:151443400-151446400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:151443600-151450400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr2:151444400-151448000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr2:151444400-151448200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr2:151444400-151448200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr2:151444600-151448000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr2:151444600-151448200	Weak transcription	HMEC	breast
9	chr2:151444600-151448200	Weak transcription	NHEK	skin
10	chr2:151444600-151452200	Weak transcription	NH-A	brain
11	chr2:151445000-151448000	Weak transcription	Osteobl	bone
12	chr2:151445000-151448200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr2:151445200-151446200	Weak transcription	Fetal Brain Female	brain
14	chr2:151445200-151447800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr2:151445200-151448000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr2:151445200-151448000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr2:151445200-151448400	Weak transcription	HSMM	muscle
18	chr2:151445400-151446400	Weak transcription	Liver	Liver
19	chr2:151445400-151447600	Weak transcription	NHLF	lung
20	chr2:151445400-151448200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr2:151445600-151447400	Weak transcription	NHDF-Ad	bronchial
22	chr2:151445800-151446200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr2:151445800-151446400	Enhancers	A549	lung
24	chr2:151446000-151446200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr2:151446000-151446800	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links