Variant report

Variant	rs11196731
Chromosome Location	chr10:116171805-116171806
allele	A/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:
2	chr10:116063461..116065488-chr10:116171625..116174495,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169129	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10787529	0.91[ASN][1000 genomes]
rs10885565	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11196732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196733	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11196735	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11196736	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11196737	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11196739	0.90[GIH][hapmap];0.81[LWK][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs11196740	0.85[AFR][1000 genomes]
rs11551242	0.86[CHB][hapmap];0.81[CHD][hapmap];0.81[LWK][hapmap];0.88[YRI][hapmap]
rs11812741	0.80[AFR][1000 genomes]
rs11817343	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12218918	0.85[AFR][1000 genomes]
rs12219876	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1570224	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3750820	0.86[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap]
rs4752726	0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs58281507	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs58450586	0.85[AFR][1000 genomes]
rs60115018	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6585278	0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7075375	0.81[CHD][hapmap]
rs7081297	0.81[CHD][hapmap]
rs7090380	0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7091921	0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7917233	0.81[CHD][hapmap]
rs7918207	0.91[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.90[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:21 , 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	chr10:116168400-116172200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr10:116168600-116172400	Weak transcription	Adipose Nuclei	Adipose
6	chr10:116168800-116172400	Weak transcription	NHLF	lung
7	chr10:116169200-116172000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr10:116169200-116172200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:116169200-116172200	Weak transcription	A549	lung
10	chr10:116169200-116172200	Weak transcription	NHEK	skin
11	chr10:116169200-116172400	Weak transcription	NH-A	brain
12	chr10:116169200-116172800	Weak transcription	NHDF-Ad	bronchial
13	chr10:116169600-116172000	Weak transcription	Fetal Muscle Leg	muscle
14	chr10:116169600-116172600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:116169600-116177600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr10:116169800-116172600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr10:116170000-116172000	Weak transcription	Spleen	Spleen
18	chr10:116170000-116172800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr10:116170200-116172600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:116171600-116172000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr10:116171800-116173600	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links