Variant report

Variant	rs7125276
Chromosome Location	chr11:47879161-47879162
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:47873347..47874902-chr11:47878009..47880856,2	MCF-7	breast:
2	chr11:47788593..47790214-chr11:47879044..47881112,2	MCF-7	breast:
3	chr11:47870685..47873439-chr11:47876355..47879304,2	MCF-7	breast:
4	chr11:47879130..47879931-chr11:48131064..48131706,2	MCF-7	breast:
5	chr11:47531412..47534315-chr11:47879046..47881492,2	K562	blood:

Variant related genes	Relation type
ENSG00000109920	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10742819	0.90[AFR][1000 genomes]
rs10769293	0.94[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs10769301	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10838756	0.90[AFR][1000 genomes]
rs10838781	0.90[AFR][1000 genomes]
rs10838785	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11039437	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1228028	1.00[MEX][hapmap]
rs1228050	1.00[MEX][hapmap]
rs12282774	1.00[MEX][hapmap]
rs1234515	1.00[MEX][hapmap]
rs1238706	1.00[MEX][hapmap]
rs13328902	1.00[MEX][hapmap]
rs1459988	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1681625	1.00[MEX][hapmap]
rs1729288	1.00[MEX][hapmap]
rs2869542	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4500446	0.97[AFR][1000 genomes]
rs4519055	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs4752863	0.87[ASW][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs4752868	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4752874	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4752876	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6485790	0.90[AFR][1000 genomes]
rs6485791	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7106293	1.00[MEX][hapmap]
rs7107116	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7112381	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7128206	0.83[AFR][1000 genomes]
rs7129454	1.00[MEX][hapmap]
rs7130715	0.87[ASW][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7936734	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7945233	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7945302	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs900696	1.00[MEX][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	nsv1052397	chr11:47675470-48594256	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv832143	chr11:47700808-47883540	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
3	nsv530620	chr11:47765455-48664555	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
4	nsv1036992	chr11:47794621-48666024	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
5	nsv1049835	chr11:47837089-47928822	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv541036	chr11:47837089-47928822	Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47870600-47879600	Weak transcription	Fetal Muscle Trunk	muscle
2	chr11:47870600-47885400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr11:47870800-47879200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr11:47870800-47879800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr11:47870800-47889400	Enhancers	Primary B cells from peripheral blood	blood
6	chr11:47871000-47883200	Weak transcription	NHDF-Ad	bronchial
7	chr11:47872200-47884000	Weak transcription	Thymus	Thymus
8	chr11:47872400-47879400	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr11:47872800-47881200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr11:47873000-47883400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr11:47873000-47884600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr11:47873200-47879600	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr11:47873200-47880600	Weak transcription	Primary T cells from cord blood	blood
14	chr11:47873400-47883200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr11:47873600-47879200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr11:47875200-47880600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr11:47875400-47879200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr11:47875400-47881200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr11:47875400-47884600	Weak transcription	Duodenum Mucosa	Duodenum
20	chr11:47875600-47879200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr11:47875600-47879200	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr11:47875800-47879400	Weak transcription	Placenta	Placenta
23	chr11:47875800-47883400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:47876200-47879400	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr11:47878000-47879200	Weak transcription	NHLF	lung
26	chr11:47878000-47879600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr11:47878000-47879600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr11:47878000-47879600	Weak transcription	Brain Angular Gyrus	brain
29	chr11:47878000-47884400	Enhancers	Primary B cells from cord blood	blood
30	chr11:47878200-47879200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr11:47878200-47879200	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr11:47878200-47879200	Weak transcription	Osteobl	bone
33	chr11:47878200-47879400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr11:47878200-47879600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr11:47878200-47879600	Weak transcription	Fetal Heart	heart
36	chr11:47878200-47883200	Weak transcription	K562	blood
37	chr11:47878600-47879200	Enhancers	A549	lung
38	chr11:47878800-47879400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr11:47878800-47880400	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr11:47879000-47879600	Enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr11:47879000-47879800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr11:47879000-47879800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr11:47879000-47880000	Flanking Active TSS	GM12878-XiMat	blood
44	chr11:47879000-47880200	Flanking Active TSS	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links