Variant report

Variant	rs12796806
Chromosome Location	chr11:119612572-119612573
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:119612041..119612599-chr11:119978926..119979560,2	MCF-7	breast:
2	chr11:119611511..119614247-chr11:119631604..119633429,2	MCF-7	breast:
3	chr11:119612432..119615293-chr2:70313000..70315605,2	K562	blood:
4	chr11:119591659..119592433-chr11:119611738..119612581,2	MCF-7	breast:
5	chr11:119536864..119537801-chr11:119611746..119612718,4	MCF-7	breast:
6	chr11:119610859..119613381-chr11:119617021..119619803,2	K562	blood:

Variant related genes	Relation type
ENSG00000179818	Chromatin interaction
ENSG00000169564	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10790339	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10892444	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10892445	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10892446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217426	0.80[EUR][1000 genomes]
rs11217429	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11217430	0.81[EUR][1000 genomes]
rs11217433	0.81[EUR][1000 genomes]
rs11217434	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11217437	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11217438	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11217440	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11217442	0.88[EUR][1000 genomes]
rs11217448	0.87[EUR][1000 genomes]
rs11607610	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12418662	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12421434	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12421466	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12786505	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12793075	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12797914	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12800445	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1876795	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2136420	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2136421	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2368936	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35248712	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3829260	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4245206	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4489755	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4505073	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4936496	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4938718	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4938719	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4938720	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58136657	0.88[EUR][1000 genomes]
rs6589770	0.87[EUR][1000 genomes]
rs73006720	0.88[EUR][1000 genomes]
rs7952366	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9666263	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898421	chr11:119499014-119631325	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv898423	chr11:119541332-119659753	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1051769	chr11:119572865-119630769	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1037739	chr11:119592989-119630641	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	esv3357144	chr11:119610642-119614840	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119609200-119612600	Enhancers	Duodenum Mucosa	Duodenum
2	chr11:119609800-119613600	Enhancers	Pancreas	Pancrea
3	chr11:119610400-119614400	Enhancers	Gastric	stomach
4	chr11:119611200-119612600	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr11:119611200-119614400	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr11:119611600-119612600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
7	chr11:119611600-119612800	Bivalent Enhancer	Brain Substantia Nigra	brain
8	chr11:119611600-119614400	Bivalent Enhancer	Stomach Mucosa	stomach
9	chr11:119611800-119613200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
10	chr11:119611800-119613200	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
11	chr11:119612000-119612600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr11:119612000-119612600	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr11:119612000-119612600	Bivalent Enhancer	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr11:119612000-119612800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr11:119612000-119613000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr11:119612000-119613000	Enhancers	Right Ventricle	heart
17	chr11:119612000-119613000	Enhancers	Spleen	Spleen
18	chr11:119612000-119613200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
19	chr11:119612000-119613200	Bivalent Enhancer	Adipose Nuclei	Adipose
20	chr11:119612000-119613200	Bivalent Enhancer	Fetal Muscle Leg	muscle
21	chr11:119612000-119613200	Bivalent Enhancer	Placenta	Placenta
22	chr11:119612000-119613200	Bivalent Enhancer	Fetal Stomach	stomach
23	chr11:119612000-119613400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr11:119612000-119613600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
25	chr11:119612000-119613600	Enhancers	Esophagus	oesophagus
26	chr11:119612000-119613600	Enhancers	Left Ventricle	heart
27	chr11:119612000-119613800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
28	chr11:119612200-119612600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
29	chr11:119612200-119612600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
30	chr11:119612200-119612600	Bivalent/Poised TSS	Primary T helper naive cells fromperipheralblood	blood
31	chr11:119612200-119612600	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr11:119612200-119612600	Active TSS	Brain Cingulate Gyrus	brain
33	chr11:119612200-119612600	Bivalent Enhancer	Fetal Brain Male	brain
34	chr11:119612200-119612600	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
35	chr11:119612200-119612600	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
36	chr11:119612200-119612600	Flanking Active TSS	HMEC	breast
37	chr11:119612200-119612800	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr11:119612200-119612800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr11:119612200-119612800	Flanking Active TSS	Brain Anterior Caudate	brain
40	chr11:119612200-119612800	Active TSS	Brain Hippocampus Middle	brain
41	chr11:119612200-119612800	Bivalent Enhancer	NH-A	brain
42	chr11:119612200-119613000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
43	chr11:119612200-119613000	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr11:119612200-119613000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr11:119612200-119613000	Flanking Active TSS	Brain Germinal Matrix	brain
46	chr11:119612200-119613000	Enhancers	Right Atrium	heart
47	chr11:119612200-119613200	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
48	chr11:119612200-119613400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr11:119612200-119613400	Active TSS	Brain Angular Gyrus	brain
50	chr11:119612200-119613600	Active TSS	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links