Variant report

Variant	rs1893229
Chromosome Location	chr11:87011889-87011890
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	chr11:86689677..86690529-chr11:87011689..87012195,2	MCF-7	breast:
2	chr11:87006858..87009141-chr11:87011283..87013131,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10751151	0.82[ASN][1000 genomes]
rs10751152	0.82[ASN][1000 genomes]
rs10751153	0.83[ASN][1000 genomes]
rs10792935	0.83[ASN][1000 genomes]
rs10792937	0.83[ASN][1000 genomes]
rs10792938	0.83[ASN][1000 genomes]
rs10792940	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10898663	0.83[ASN][1000 genomes]
rs10898665	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11235083	0.83[ASN][1000 genomes]
rs12272741	0.83[ASN][1000 genomes]
rs12273325	0.82[ASN][1000 genomes]
rs12288478	0.82[ASN][1000 genomes]
rs1893004	0.83[ASN][1000 genomes]
rs1893005	0.83[ASN][1000 genomes]
rs2276102	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4400838	0.83[ASN][1000 genomes]
rs4944697	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6592346	0.80[ASN][1000 genomes]
rs6592347	0.80[ASN][1000 genomes]
rs6592349	0.80[ASN][1000 genomes]
rs6592352	0.83[ASN][1000 genomes]
rs6592355	0.83[ASN][1000 genomes]
rs7108829	0.89[EUR][1000 genomes]
rs7118558	0.83[ASN][1000 genomes]
rs7931059	0.83[ASN][1000 genomes]
rs7947510	0.82[ASN][1000 genomes]
rs9666962	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043562	chr11:86755535-87547185	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv541120	chr11:86755535-87547185	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv1046288	chr11:86757573-87158571	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1045057	chr11:86794670-87033779	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv541121	chr11:86794670-87033779	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv898064	chr11:86864277-87013438	Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv2829956	chr11:86872504-87025059	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv898073	chr11:86963330-87013438	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
9	nsv898074	chr11:86963330-87034696	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	n/a
10	nsv555713	chr11:86971548-87013438	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86991600-87014200	Weak transcription	HepG2	liver
2	chr11:86992000-87017600	Weak transcription	Aorta	Aorta
3	chr11:86992600-87020600	Weak transcription	Liver	Liver
4	chr11:86994000-87014200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:86995200-87018800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr11:86996800-87013000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr11:87004000-87032600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr11:87006400-87030600	Weak transcription	Dnd41	blood
9	chr11:87008200-87013000	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr11:87008200-87013400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr11:87008400-87012000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr11:87008400-87012000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr11:87008400-87017400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:87008800-87012200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr11:87009000-87012000	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr11:87009000-87012800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr11:87009000-87013000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr11:87009000-87013200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr11:87009600-87012400	Weak transcription	HUVEC	blood vessel
20	chr11:87010200-87012600	Enhancers	K562	blood
21	chr11:87010200-87017400	Weak transcription	Small Intestine	intestine
22	chr11:87010200-87037200	Weak transcription	Fetal Muscle Trunk	muscle
23	chr11:87010400-87012000	Enhancers	Fetal Heart	heart
24	chr11:87010600-87018000	Weak transcription	Gastric	stomach
25	chr11:87010600-87036800	Weak transcription	Psoas Muscle	Psoas
26	chr11:87010800-87017400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr11:87011200-87012800	Enhancers	Fetal Lung	lung
28	chr11:87011400-87013200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr11:87011400-87013200	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr11:87011600-87012000	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr11:87011600-87012000	Enhancers	Duodenum Mucosa	Duodenum
32	chr11:87011600-87012000	Enhancers	Fetal Kidney	kidney
33	chr11:87011600-87012200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr11:87011600-87012600	Enhancers	Fetal Muscle Leg	muscle
35	chr11:87011600-87012600	Enhancers	Fetal Thymus	thymus
36	chr11:87011600-87013800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr11:87011800-87012000	Enhancers	H9 Cell Line	embryonic stem cell
38	chr11:87011800-87012000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:87011800-87012000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr11:87011800-87012000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
41	chr11:87011800-87012000	Enhancers	Fetal Intestine Small	intestine
42	chr11:87011800-87012000	Enhancers	Ovary	ovary
43	chr11:87011800-87012200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr11:87011800-87012200	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr11:87011800-87012200	Enhancers	Stomach Mucosa	stomach
46	chr11:87011800-87012400	Enhancers	Brain Cingulate Gyrus	brain
47	chr11:87011800-87012400	Enhancers	Rectal Mucosa Donor 29	rectum
48	chr11:87011800-87012600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr11:87011800-87012600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr11:87011800-87012600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links