Variant report

Variant	rs10896599
Chromosome Location	chr11:57056893-57056894
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:57054342..57056926-chr11:57058891..57060493,2	MCF-7	breast:
2	chr11:57054119..57055817-chr11:57056787..57058987,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10896595	0.84[ASN][1000 genomes]
rs10896597	0.92[ASN][1000 genomes]
rs10896601	0.87[EUR][1000 genomes]
rs11228968	0.86[ASN][1000 genomes]
rs11228975	0.86[ASN][1000 genomes]
rs11228976	0.86[ASN][1000 genomes]
rs11228978	0.86[ASN][1000 genomes]
rs11228980	0.86[ASN][1000 genomes]
rs11228982	0.80[ASN][1000 genomes]
rs11228984	0.89[ASN][1000 genomes]
rs11228985	0.89[ASN][1000 genomes]
rs11600878	0.80[ASN][1000 genomes]
rs11602501	0.87[EUR][1000 genomes]
rs11604560	0.86[ASN][1000 genomes]
rs11605053	0.89[ASN][1000 genomes]
rs11607817	0.86[ASN][1000 genomes]
rs12419065	0.83[ASN][1000 genomes]
rs12421633	0.86[ASN][1000 genomes]
rs12421755	0.86[ASN][1000 genomes]
rs12792781	0.89[ASN][1000 genomes]
rs12797769	0.90[ASN][1000 genomes]
rs17572970	0.86[ASN][1000 genomes]
rs17573746	0.89[EUR][1000 genomes]
rs17651610	0.86[ASN][1000 genomes]
rs17652078	0.86[ASN][1000 genomes]
rs1892963	0.86[ASN][1000 genomes]
rs1892964	0.92[ASN][1000 genomes]
rs1939489	0.89[ASN][1000 genomes]
rs1939495	0.86[ASN][1000 genomes]
rs1939496	0.86[EUR][1000 genomes]
rs2155230	0.86[ASN][1000 genomes]
rs2155231	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2226613	0.88[ASN][1000 genomes]
rs2511026	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2511029	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2511030	0.92[ASN][1000 genomes]
rs2846042	0.92[ASN][1000 genomes]
rs2846049	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2846050	0.92[ASN][1000 genomes]
rs2846051	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2851722	0.92[ASN][1000 genomes]
rs35610294	0.85[ASN][1000 genomes]
rs3935068	0.87[ASN][1000 genomes]
rs4384399	0.86[ASN][1000 genomes]
rs4565915	0.89[ASN][1000 genomes]
rs479949	0.92[ASN][1000 genomes]
rs4938855	0.86[ASN][1000 genomes]
rs4938857	0.86[ASN][1000 genomes]
rs4938859	0.85[ASN][1000 genomes]
rs4938861	0.86[ASN][1000 genomes]
rs4939129	0.88[EUR][1000 genomes]
rs4939131	0.87[EUR][1000 genomes]
rs4939132	0.88[ASN][1000 genomes]
rs499318	0.93[ASN][1000 genomes]
rs5012051	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs519277	0.92[ASN][1000 genomes]
rs522656	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs528101	0.92[ASN][1000 genomes]
rs58295319	0.83[ASN][1000 genomes]
rs590240	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs599947	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs625565	0.92[ASN][1000 genomes]
rs652016	0.89[ASN][1000 genomes]
rs654635	0.92[ASN][1000 genomes]
rs6591413	0.86[ASN][1000 genomes]
rs6591415	0.86[ASN][1000 genomes]
rs6591416	0.89[ASN][1000 genomes]
rs6591417	0.89[ASN][1000 genomes]
rs7102963	0.86[ASN][1000 genomes]
rs7120644	0.86[ASN][1000 genomes]
rs7128371	0.89[ASN][1000 genomes]
rs7130252	0.86[ASN][1000 genomes]
rs72921992	0.88[ASN][1000 genomes]
rs7931298	0.82[EUR][1000 genomes]
rs7935236	0.85[ASN][1000 genomes]
rs7943915	0.83[EUR][1000 genomes]
rs7948723	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57046000-57062000	Weak transcription	Right Atrium	heart
2	chr11:57051800-57062000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr11:57052200-57060400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr11:57052400-57057200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr11:57052400-57078200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr11:57055000-57058400	Enhancers	HMEC	breast
7	chr11:57055200-57058400	Enhancers	NHEK	skin
8	chr11:57055200-57063400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr11:57055400-57057000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr11:57055400-57057400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr11:57055400-57057800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr11:57055400-57057800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr11:57055400-57058200	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr11:57055400-57058400	Enhancers	Fetal Intestine Large	intestine
15	chr11:57055600-57057000	Enhancers	Colonic Mucosa	Colon
16	chr11:57055600-57058200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr11:57055600-57058200	Enhancers	NHDF-Ad	bronchial
18	chr11:57055600-57058400	Enhancers	Muscle Satellite Cultured Cells	--
19	chr11:57055600-57058400	Enhancers	NH-A	brain
20	chr11:57055600-57058400	Enhancers	NHLF	lung
21	chr11:57055800-57057400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr11:57055800-57057800	Enhancers	Rectal Mucosa Donor 31	rectum
23	chr11:57055800-57058200	Enhancers	HUVEC	blood vessel
24	chr11:57055800-57058400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr11:57055800-57058400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr11:57055800-57058400	Enhancers	Duodenum Mucosa	Duodenum
27	chr11:57056000-57057000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr11:57056000-57057200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr11:57056000-57057200	Enhancers	Adipose Nuclei	Adipose
30	chr11:57056000-57058200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr11:57056000-57058400	Enhancers	Fetal Intestine Small	intestine
32	chr11:57056000-57058600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr11:57056200-57057200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr11:57056200-57057200	Enhancers	Fetal Muscle Leg	muscle
35	chr11:57056200-57057400	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr11:57056200-57057400	Enhancers	iPS-18 Cell Line	embryonic stem cell
37	chr11:57056200-57057800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr11:57056200-57057800	Enhancers	Stomach Mucosa	stomach
39	chr11:57056400-57057000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr11:57056400-57057000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr11:57056400-57057000	Enhancers	Primary hematopoietic stem cells	blood
42	chr11:57056400-57057000	Enhancers	Fetal Stomach	stomach
43	chr11:57056400-57057000	Enhancers	Gastric	stomach
44	chr11:57056400-57057000	Enhancers	Ovary	ovary
45	chr11:57056400-57057000	Enhancers	Pancreas	Pancrea
46	chr11:57056400-57057000	Enhancers	Spleen	Spleen
47	chr11:57056400-57057200	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr11:57056400-57057200	Enhancers	H1 Cell Line	embryonic stem cell
49	chr11:57056400-57057200	Enhancers	iPS-15b Cell Line	embryonic stem cell
50	chr11:57056400-57057200	Enhancers	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links