Variant report

Variant	rs11188012
Chromosome Location	chr10:96306605-96306606
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:96120995..96123181-chr10:96304440..96307322,3	MCF-7	breast:
2	chr10:96160448..96164371-chr10:96304138..96307716,8	MCF-7	breast:
3	chr10:96304740..96307263-chr10:96312412..96314149,2	MCF-7	breast:
4	chr10:96159758..96162488-chr10:96305268..96307065,2	K562	blood:
5	chr10:96305075..96307344-chr10:96312057..96315359,3	K562	blood:
6	chr10:96306294..96309021-chr10:96316197..96318090,2	K562	blood:

Variant related genes	Relation type
ENSG00000108239	Chromatin interaction
ENSG00000119969	Chromatin interaction
ENSG00000173145	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10786168	0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs10786169	1.00[JPT][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882460	0.83[JPT][hapmap]
rs10882463	0.83[JPT][hapmap]
rs10882474	0.83[JPT][hapmap];0.83[EUR][1000 genomes]
rs10882477	0.84[JPT][hapmap];0.82[EUR][1000 genomes]
rs11187938	0.83[EUR][1000 genomes]
rs11187939	0.82[JPT][hapmap]
rs11187944	0.83[JPT][hapmap]
rs11187952	0.83[JPT][hapmap];0.80[YRI][hapmap]
rs11187960	0.83[JPT][hapmap]
rs11187972	0.91[JPT][hapmap]
rs11187998	0.80[JPT][hapmap]
rs11188009	0.83[JPT][hapmap];0.83[EUR][1000 genomes]
rs11188019	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11188020	0.80[JPT][hapmap]
rs11188040	0.80[JPT][hapmap]
rs11638	0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12218213	0.80[JPT][hapmap]
rs12218216	0.80[JPT][hapmap]
rs12219906	0.80[JPT][hapmap]
rs12221475	0.83[JPT][hapmap]
rs12573638	0.81[JPT][hapmap]
rs1334595	0.83[JPT][hapmap]
rs1359263	0.80[JPT][hapmap]
rs1409655	0.83[JPT][hapmap]
rs1749356	0.81[JPT][hapmap]
rs1931757	1.00[JPT][hapmap]
rs1969815	0.80[JPT][hapmap]
rs1977288	0.83[JPT][hapmap]
rs1977289	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1977291	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1980741	1.00[JPT][hapmap]
rs2148553	0.81[JPT][hapmap]
rs2274096	0.81[EUR][1000 genomes]
rs2274417	0.80[JPT][hapmap]
rs2281791	0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs2860821	0.80[JPT][hapmap]
rs2860840	0.83[JPT][hapmap]
rs3740358	0.83[JPT][hapmap]
rs3781262	0.83[JPT][hapmap]
rs4351744	1.00[JPT][hapmap]
rs480032	0.84[JPT][hapmap]
rs4918402	0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs4918404	0.81[EUR][1000 genomes]
rs4918409	0.80[JPT][hapmap]
rs4918417	0.84[JPT][hapmap]
rs4918419	0.81[JPT][hapmap]
rs517784	0.84[JPT][hapmap]
rs555782	0.84[EUR][1000 genomes]
rs556055	0.84[JPT][hapmap]
rs6583942	0.84[JPT][hapmap]
rs6583946	0.85[ASN][1000 genomes]
rs692872	0.83[JPT][hapmap]
rs701885	0.83[JPT][hapmap]
rs7078478	0.89[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7078811	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[ASN][1000 genomes]
rs7079934	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7083898	1.00[JPT][hapmap]
rs7092129	0.83[JPT][hapmap]
rs7096007	0.80[ASN][1000 genomes]
rs7393251	0.82[YRI][hapmap]
rs7895305	0.87[EUR][1000 genomes]
rs7906843	0.81[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7906968	0.81[JPT][hapmap]
rs7913343	0.94[JPT][hapmap]
rs7921721	1.00[JPT][hapmap]
rs912466	0.80[JPT][hapmap]
rs955694	0.81[JPT][hapmap]
rs9633675	0.87[EUR][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	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1053747	chr10:96211618-96366396	Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers 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	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96304200-96306800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr10:96304200-96306800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr10:96304200-96307000	Active TSS	A549	lung
4	chr10:96304400-96306800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr10:96304400-96306800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:96304400-96306800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr10:96304400-96307000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr10:96304400-96307000	Active TSS	Muscle Satellite Cultured Cells	--
9	chr10:96304400-96307200	Active TSS	GM12878-XiMat	blood
10	chr10:96304400-96307400	Active TSS	ES-I3 Cell Line	embryonic stem cell
11	chr10:96304400-96307400	Active TSS	K562	blood
12	chr10:96304400-96307600	Active TSS	NHLF	lung
13	chr10:96304400-96309000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr10:96304600-96306800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:96304600-96306800	Active TSS	Fetal Intestine Small	intestine
16	chr10:96304600-96307000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr10:96304600-96307000	Active TSS	Brain Germinal Matrix	brain
18	chr10:96304600-96307000	Active TSS	Fetal Kidney	kidney
19	chr10:96304600-96307000	Active TSS	Fetal Stomach	stomach
20	chr10:96304600-96307200	Active TSS	H1 Cell Line	embryonic stem cell
21	chr10:96304600-96307200	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr10:96304600-96307400	Active TSS	H9 Cell Line	embryonic stem cell
23	chr10:96304600-96307400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr10:96304600-96307400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr10:96304800-96307000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr10:96304800-96307000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
27	chr10:96304800-96307000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr10:96304800-96307200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
29	chr10:96304800-96307600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr10:96304800-96307800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr10:96305000-96306800	Active TSS	Rectal Smooth Muscle	rectum
32	chr10:96305800-96306800	Flanking Active TSS	Duodenum Mucosa	Duodenum
33	chr10:96305800-96306800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr10:96305800-96308000	Transcr. at gene 5' and 3'	Dnd41	blood
35	chr10:96306000-96306800	Flanking Active TSS	Primary T cells from cord blood	blood
36	chr10:96306000-96306800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
37	chr10:96306000-96306800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr10:96306000-96307000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:96306000-96307000	Flanking Active TSS	Osteobl	bone
40	chr10:96306000-96307200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr10:96306000-96307400	Flanking Active TSS	HUVEC	blood vessel
42	chr10:96306200-96306800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr10:96306200-96306800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
44	chr10:96306200-96306800	Flanking Active TSS	HMEC	breast
45	chr10:96306200-96307000	Active TSS	HepG2	liver
46	chr10:96306200-96307200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
47	chr10:96306200-96307200	Active TSS	Fetal Brain Male	brain
48	chr10:96306200-96307200	Flanking Active TSS	NH-A	brain
49	chr10:96306200-96307800	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
50	chr10:96306200-96318600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links