Variant report

Variant	rs17572970
Chromosome Location	chr11:57018245-57018246
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:57018230..57020024-chr11:57091616..57094566,2	MCF-7	breast:
2	chr11:56897171..56899424-chr11:57016274..57018526,19	MCF-7	breast:
3	chr11:56891684..56895187-chr11:57015179..57019419,3	K562	blood:

Variant related genes	Relation type
ENSG00000149115	Chromatin interaction
ENSG00000254662	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10792083	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs10792085	0.82[CEU][hapmap]
rs10896595	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10896597	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10896599	0.86[ASN][1000 genomes]
rs10896602	0.82[CEU][hapmap]
rs11228968	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228975	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228976	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228978	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228980	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228982	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11228984	0.92[CHB][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]
rs11228985	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11228988	0.90[EUR][1000 genomes]
rs11600878	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11604373	0.86[EUR][1000 genomes]
rs11604560	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11604778	0.84[ASN][1000 genomes]
rs11605053	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11607817	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12419065	0.89[ASN][1000 genomes]
rs12421633	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421755	0.96[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12792781	0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12797769	0.96[ASN][1000 genomes]
rs17651610	1.00[ASN][1000 genomes]
rs17652078	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1892963	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1892964	0.94[ASN][1000 genomes]
rs1939489	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1939495	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2155230	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2155231	0.89[ASN][1000 genomes]
rs2226613	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2276038	0.82[JPT][hapmap]
rs2511026	0.85[ASN][1000 genomes]
rs2511029	0.89[ASN][1000 genomes]
rs2511030	0.94[ASN][1000 genomes]
rs2846042	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2846049	0.83[ASN][1000 genomes]
rs2846050	0.94[ASN][1000 genomes]
rs2846051	0.87[ASN][1000 genomes]
rs2851722	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35610294	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3935068	0.95[ASN][1000 genomes]
rs4384399	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4565915	0.95[ASN][1000 genomes]
rs479949	0.94[ASN][1000 genomes]
rs4938855	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4938857	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4938859	0.97[AFR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4938861	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4939132	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs499318	0.94[ASN][1000 genomes]
rs5012051	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs519277	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs522656	0.89[ASN][1000 genomes]
rs528101	0.94[ASN][1000 genomes]
rs58295319	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs590240	0.89[ASN][1000 genomes]
rs599947	0.89[ASN][1000 genomes]
rs625565	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs652016	0.92[ASN][1000 genomes]
rs654635	0.94[ASN][1000 genomes]
rs6591413	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6591415	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6591416	0.95[ASN][1000 genomes]
rs6591417	0.95[ASN][1000 genomes]
rs7102963	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7120644	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128371	0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7130252	0.97[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72921992	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7935236	0.91[ASN][1000 genomes]
rs7943761	0.86[EUR][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	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv482317	chr11:56857026-57028631	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57016400-57019400	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr11:57016400-57019600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr11:57016400-57020800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr11:57016400-57020800	Enhancers	HMEC	breast
5	chr11:57017000-57018400	Weak transcription	Left Ventricle	heart
6	chr11:57017000-57018400	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr11:57017000-57018600	Weak transcription	Psoas Muscle	Psoas
8	chr11:57017000-57018600	Weak transcription	Right Atrium	heart
9	chr11:57017000-57018800	Weak transcription	Fetal Muscle Leg	muscle
10	chr11:57017000-57018800	Weak transcription	Lung	lung
11	chr11:57017000-57019200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr11:57017000-57020200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr11:57017000-57021000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr11:57017000-57021000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr11:57017200-57018400	Weak transcription	Liver	Liver
16	chr11:57017200-57018400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr11:57017200-57019600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:57017200-57019600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr11:57017200-57023200	Weak transcription	HSMMtube	muscle
20	chr11:57017200-57026000	Weak transcription	Fetal Brain Male	brain
21	chr11:57017400-57018400	Weak transcription	Adipose Nuclei	Adipose
22	chr11:57017600-57018400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr11:57017600-57018400	Weak transcription	K562	blood
24	chr11:57017600-57018600	Weak transcription	A549	lung
25	chr11:57017800-57020200	Weak transcription	NHEK	skin
26	chr11:57017800-57020400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr11:57018000-57021200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:57018200-57028800	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links