Variant report

Variant	rs941855
Chromosome Location	chr10:116169841-116169842
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	chr10:116162670..116164561-chr10:116169325..116171816,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169129	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11196728	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196738	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12354693	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12354943	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12355335	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12356147	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12357098	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359269	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17406965	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs41293058	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs475150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.88[TSI][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs605654	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61868314	0.94[EUR][1000 genomes]
rs61868324	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs622320	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs622646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6585277	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7069926	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7899139	0.83[JPT][hapmap]
rs7900888	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7910088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.94[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7916374	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7916796	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9665297	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116165000-116172000	Weak transcription	Esophagus	oesophagus
2	chr10:116165000-116172600	Weak transcription	Pancreas	Pancrea
3	chr10:116165400-116172200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr10:116167600-116170000	Enhancers	Spleen	Spleen
5	chr10:116167800-116170200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:116168400-116172200	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr10:116168600-116170000	Enhancers	Fetal Muscle Trunk	muscle
8	chr10:116168600-116172400	Weak transcription	Adipose Nuclei	Adipose
9	chr10:116168800-116170200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:116168800-116172400	Weak transcription	NHLF	lung
11	chr10:116169000-116170000	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr10:116169200-116172000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:116169200-116172200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:116169200-116172200	Weak transcription	A549	lung
15	chr10:116169200-116172200	Weak transcription	NHEK	skin
16	chr10:116169200-116172400	Weak transcription	NH-A	brain
17	chr10:116169200-116172800	Weak transcription	NHDF-Ad	bronchial
18	chr10:116169400-116171400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:116169600-116172000	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:116169600-116172600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr10:116169600-116177600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr10:116169800-116170000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr10:116169800-116172600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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