Variant report

Variant	rs2060008
Chromosome Location	chr11:121179847-121179848
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	chr11:121179024..121181756-chr11:121184079..121185753,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10892717	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10892720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12226297	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12363999	0.85[CHB][hapmap]
rs12786590	0.89[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.84[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35288685	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4423192	0.80[CHB][hapmap]
rs6589872	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7102059	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7104501	0.85[CHB][hapmap]
rs7106203	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7106859	0.81[CHB][hapmap]
rs7119890	0.80[CHB][hapmap]
rs7930204	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs891441	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[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	nsv898424	chr11:121108865-121206354	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv898425	chr11:121115206-121215237	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv898426	chr11:121136604-121206354	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:121164000-121181400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:121164200-121183000	Weak transcription	Esophagus	oesophagus
3	chr11:121164400-121183000	Weak transcription	Fetal Stomach	stomach
4	chr11:121164600-121180200	Weak transcription	K562	blood
5	chr11:121164800-121182000	Weak transcription	A549	lung
6	chr11:121165000-121189400	Weak transcription	Fetal Intestine Small	intestine
7	chr11:121171600-121181600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr11:121171600-121181800	Weak transcription	Pancreas	Pancrea
9	chr11:121171600-121182000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr11:121171600-121189600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr11:121171800-121190200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr11:121172600-121180600	Strong transcription	Dnd41	blood
13	chr11:121172600-121182000	Strong transcription	Primary T cells from cord blood	blood
14	chr11:121172800-121180800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr11:121173200-121180200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr11:121173200-121180600	Strong transcription	HMEC	breast
17	chr11:121173200-121181200	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr11:121173400-121180600	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr11:121173400-121180800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
20	chr11:121173400-121180800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr11:121173400-121181000	Strong transcription	HSMMtube	muscle
22	chr11:121173600-121180200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr11:121173600-121180200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr11:121173800-121180200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr11:121173800-121180800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr11:121174000-121180000	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr11:121174000-121180800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr11:121174000-121180800	Strong transcription	HSMM	muscle
29	chr11:121174000-121181000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr11:121174200-121180200	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr11:121174200-121180800	Strong transcription	Adipose Nuclei	Adipose
32	chr11:121174200-121180800	Strong transcription	Liver	Liver
33	chr11:121174400-121180000	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr11:121174400-121180600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr11:121174600-121180000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr11:121174600-121180200	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr11:121174600-121180400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr11:121174800-121180000	Strong transcription	Duodenum Mucosa	Duodenum
39	chr11:121174800-121180000	Strong transcription	NHDF-Ad	bronchial
40	chr11:121174800-121180800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr11:121175000-121180000	Strong transcription	Brain Inferior Temporal Lobe	brain
42	chr11:121175000-121180000	Strong transcription	NH-A	brain
43	chr11:121175000-121180200	Strong transcription	H1 Cell Line	embryonic stem cell
44	chr11:121175000-121180200	Strong transcription	Fetal Muscle Leg	muscle
45	chr11:121175000-121180200	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr11:121175000-121180600	Strong transcription	Muscle Satellite Cultured Cells	--
47	chr11:121175000-121180600	Strong transcription	Fetal Thymus	thymus
48	chr11:121175000-121181600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr11:121175400-121181800	Strong transcription	Sigmoid Colon	Sigmoid Colon
50	chr11:121175600-121180600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links