Variant report

Variant	rs3019946
Chromosome Location	chr8:107993984-107993985
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	chr8:107992879..107994414-chr8:107998653..108000399,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1461996	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1462013	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1466403	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1466404	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1903611	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2126362	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2346901	0.87[EUR][1000 genomes]
rs2346902	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2920094	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2920095	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2920097	0.91[EUR][1000 genomes]
rs2927092	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2927094	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2927095	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2927097	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2927102	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2927103	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2927105	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2927106	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2927112	0.88[ASN][1000 genomes]
rs2927120	0.88[ASN][1000 genomes]
rs2927150	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2927161	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2927162	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2927166	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2927167	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2927168	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3019909	0.89[EUR][1000 genomes]
rs3019910	0.86[EUR][1000 genomes]
rs3019912	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3019913	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3019914	0.90[EUR][1000 genomes]
rs3019915	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3019916	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3019917	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3019933	0.84[EUR][1000 genomes]
rs3019939	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3019944	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3019945	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3019948	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3019954	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3019956	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3019957	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3019958	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3019959	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3019960	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3019962	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3019965	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3019966	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3019978	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4410880	0.82[ASN][1000 genomes]
rs4504601	0.85[CEU][hapmap]
rs7842415	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7842583	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs974911	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs974912	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs989789	0.88[ASN][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	nsv1029202	chr8:107796289-108384241	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv539712	chr8:107796289-108384241	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1034210	chr8:107796489-108384102	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv539713	chr8:107796489-108384102	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv529383	chr8:107796490-108368465	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv915821	chr8:107796490-108393008	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv916496	chr8:107813722-108338822	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1028726	chr8:107816841-108392547	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv497805	chr8:107852509-108368371	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107987400-107998400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr8:107987800-107995400	Weak transcription	Aorta	Aorta
3	chr8:107992200-107994000	Enhancers	Fetal Intestine Large	intestine
4	chr8:107993000-107995200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr8:107993200-107995200	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr8:107993400-107995200	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr8:107993600-107994200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr8:107993600-107994800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr8:107993600-107995200	Weak transcription	Fetal Intestine Small	intestine
10	chr8:107993800-107994200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links