Variant report

Variant	rs16858353
Chromosome Location	chr3:111340976-111340977
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	chr3:111296389..111297299-chr3:111340223..111341030,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10511300	0.89[AMR][1000 genomes]
rs1513328	0.80[ASN][1000 genomes]
rs16858319	0.93[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3733176	0.88[CHD][hapmap]
rs57501419	0.81[ASN][1000 genomes]
rs6765832	0.81[ASN][1000 genomes]
rs6770144	0.88[CHD][hapmap]
rs6771309	0.88[CHD][hapmap]
rs6780210	0.88[CHD][hapmap]
rs6780729	0.81[ASN][1000 genomes]
rs73852837	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs73852844	0.81[AMR][1000 genomes]
rs9858544	0.85[CHD][hapmap];0.80[ASN][1000 genomes]

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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv997756	chr3:111226058-111376585	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111336600-111341200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:111336800-111341000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:111336800-111342400	Weak transcription	Primary B cells from peripheral blood	blood
4	chr3:111337000-111342000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:111337000-111342800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr3:111337000-111346000	Weak transcription	Thymus	Thymus
7	chr3:111337200-111342600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr3:111337200-111342600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr3:111337200-111343000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr3:111337200-111343200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:111337200-111344800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr3:111337200-111346000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:111338600-111347800	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr3:111338800-111343400	Strong transcription	Dnd41	blood
15	chr3:111339200-111341800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr3:111339400-111341400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:111339400-111342000	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr3:111339600-111343000	Weak transcription	Fetal Thymus	thymus
19	chr3:111340000-111342600	Weak transcription	Primary T cells from cord blood	blood
20	chr3:111340400-111344800	Strong transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links