Variant report

Variant	rs10892434
Chromosome Location	chr11:119573389-119573390
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	chr11:119571255..119574750-chr11:119575063..119576895,3	MCF-7	breast:
2	chr11:119572643..119574728-chr11:119576925..119579390,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10790331	0.82[EUR][1000 genomes]
rs10790332	0.88[CEU][hapmap]
rs10790335	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10892433	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1110166	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11217414	1.00[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11217415	1.00[CEU][hapmap];0.84[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11825206	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1467051	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2006949	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2015078	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2292293	0.88[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3902806	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3935405	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3935406	1.00[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4623916	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4936492	0.92[CEU][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4936493	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4936494	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4936495	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4938708	0.92[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4938709	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4938710	0.86[EUR][1000 genomes]
rs4938711	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6589769	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7110874	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7111290	0.96[CEU][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7122134	0.89[CEU][hapmap]
rs7124934	0.80[EUR][1000 genomes]
rs715849	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7924573	1.00[CEU][hapmap];0.83[CHB][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7932832	1.00[CEU][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7933848	0.92[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7945395	1.00[CEU][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7945424	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7950059	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs885429	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs885430	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs906830	0.88[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898421	chr11:119499014-119631325	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv898422	chr11:119518006-119601779	Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv898423	chr11:119541332-119659753	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv468880	chr11:119564496-119588062	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv556471	chr11:119564496-119588062	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1051769	chr11:119572865-119630769	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119561000-119580600	Weak transcription	Fetal Kidney	kidney
2	chr11:119561800-119577600	Enhancers	Brain Hippocampus Middle	brain
3	chr11:119562000-119578400	Enhancers	Duodenum Mucosa	Duodenum
4	chr11:119563200-119578400	Genic enhancers	Fetal Intestine Small	intestine
5	chr11:119563600-119574000	Enhancers	Placenta	Placenta
6	chr11:119564200-119578400	Enhancers	Fetal Intestine Large	intestine
7	chr11:119565200-119582600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr11:119567200-119573600	Enhancers	Small Intestine	intestine
9	chr11:119567400-119573400	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr11:119567400-119574400	Enhancers	Fetal Muscle Leg	muscle
11	chr11:119567400-119575000	Enhancers	Fetal Muscle Trunk	muscle
12	chr11:119567400-119576600	Weak transcription	Fetal Heart	heart
13	chr11:119567400-119579000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr11:119568000-119580600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr11:119568200-119573600	Enhancers	Adipose Nuclei	Adipose
16	chr11:119568400-119573800	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr11:119568400-119575600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr11:119568400-119580600	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr11:119568400-119587000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr11:119568600-119574200	Enhancers	Esophagus	oesophagus
21	chr11:119568600-119574600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr11:119568600-119580600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr11:119568600-119580600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr11:119568600-119590400	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr11:119568800-119574200	Enhancers	HMEC	breast
26	chr11:119568800-119576800	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr11:119569200-119573600	Genic enhancers	NHEK	skin
28	chr11:119569600-119574400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr11:119569800-119574200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr11:119569800-119575000	Enhancers	Pancreas	Pancrea
31	chr11:119570000-119576200	Weak transcription	Fetal Stomach	stomach
32	chr11:119570000-119579200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr11:119570600-119573800	Weak transcription	Spleen	Spleen
34	chr11:119570600-119574000	Weak transcription	Gastric	stomach
35	chr11:119570800-119574800	Enhancers	Brain Cingulate Gyrus	brain
36	chr11:119571000-119574800	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr11:119571600-119574200	Enhancers	HSMM	muscle
38	chr11:119571800-119576200	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr11:119571800-119576600	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr11:119571800-119579600	Weak transcription	NH-A	brain
41	chr11:119571800-119580000	Weak transcription	Colonic Mucosa	Colon
42	chr11:119572000-119574000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr11:119572000-119574400	Enhancers	HSMMtube	muscle
44	chr11:119572200-119573400	Enhancers	Brain Germinal Matrix	brain
45	chr11:119572200-119573400	Enhancers	Fetal Brain Female	brain
46	chr11:119572200-119573800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr11:119572200-119577800	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr11:119572400-119573400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr11:119572400-119573800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
50	chr11:119572400-119574800	Enhancers	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links