Variant report

Variant	rs8087936
Chromosome Location	chr18:13010633-13010634
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:13007679..13010088-chr18:13010459..13012562,3	MCF-7	breast:
2	chr18:13009187..13011605-chr18:13016095..13017651,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101639	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11080619	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11663300	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16940002	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56005633	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56171834	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58910186	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66484417	0.84[EUR][1000 genomes]
rs7232135	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7244871	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72874147	0.83[EUR][1000 genomes]
rs8089189	0.87[EUR][1000 genomes]
rs9946408	0.86[EUR][1000 genomes]
rs9947799	0.84[EUR][1000 genomes]
rs9949475	0.86[EUR][1000 genomes]
rs9949532	0.86[EUR][1000 genomes]
rs9957933	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
3	nsv1057083	chr18:12916779-13207538	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv576524	chr18:12918318-13183609	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1056593	chr18:12926314-13183383	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv1064364	chr18:12926314-13207686	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv1062413	chr18:12988947-13039941	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
8	nsv543657	chr18:12988947-13039941	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12992600-13031200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr18:12992800-13013200	Weak transcription	Fetal Kidney	kidney
3	chr18:12992800-13016000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr18:12993000-13023800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr18:12993400-13017800	Weak transcription	Stomach Mucosa	stomach
6	chr18:12993600-13011800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr18:12993600-13011800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr18:12995000-13011400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr18:12995200-13042000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr18:12997200-13011200	Weak transcription	Right Ventricle	heart
11	chr18:12997200-13013200	Weak transcription	Small Intestine	intestine
12	chr18:12997400-13015000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr18:12998400-13041600	Strong transcription	Dnd41	blood
14	chr18:12999000-13011800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr18:12999200-13039000	Strong transcription	Fetal Thymus	thymus
16	chr18:12999400-13020800	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr18:12999400-13021800	Strong transcription	Primary T cells from cord blood	blood
18	chr18:12999600-13017200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr18:12999600-13018800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr18:13000200-13011200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr18:13000400-13034000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr18:13002800-13021200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr18:13003000-13011400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr18:13003200-13011200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr18:13003400-13016800	Strong transcription	Thymus	Thymus
26	chr18:13004000-13010800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr18:13004000-13012000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr18:13004000-13015000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr18:13004600-13018200	Strong transcription	GM12878-XiMat	blood
30	chr18:13004800-13024200	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr18:13004800-13031800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr18:13005000-13039200	Strong transcription	Primary B cells from peripheral blood	blood
33	chr18:13005400-13017400	Strong transcription	Sigmoid Colon	Sigmoid Colon
34	chr18:13005400-13018600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr18:13005400-13018600	Strong transcription	Fetal Intestine Large	intestine
36	chr18:13005400-13033400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr18:13005600-13015800	Weak transcription	Esophagus	oesophagus
38	chr18:13005800-13011800	Weak transcription	Primary B cells from cord blood	blood
39	chr18:13005800-13012200	Weak transcription	Brain Germinal Matrix	brain
40	chr18:13005800-13013200	Weak transcription	Aorta	Aorta
41	chr18:13005800-13015600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr18:13006400-13034400	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr18:13006600-13018000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr18:13006800-13014000	Strong transcription	HepG2	liver
45	chr18:13007200-13013400	Weak transcription	Fetal Heart	heart
46	chr18:13007200-13044000	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr18:13007400-13012600	Weak transcription	Fetal Brain Male	brain
48	chr18:13007600-13014800	Weak transcription	Fetal Brain Female	brain
49	chr18:13007600-13014800	Weak transcription	HSMMtube	muscle
50	chr18:13007600-13018000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links