Variant report

Variant	rs11080608
Chromosome Location	chr18:12875293-12875294
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	chr18:12849948..12852181-chr18:12873854..12875806,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs3809915	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57095726	1.00[AMR][1000 genomes]
rs59520091	1.00[AMR][1000 genomes]
rs60267243	1.00[AMR][1000 genomes]
rs60287618	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61637080	1.00[AMR][1000 genomes]
rs8087077	1.00[AMR][1000 genomes];1.00[ASN][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	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	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
3	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
4	nsv1064844	chr18:12748045-12953235	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
5	nsv543656	chr18:12748045-12953235	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12838800-12879000	Weak transcription	Psoas Muscle	Psoas
2	chr18:12844200-12879800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr18:12857800-12881600	Weak transcription	Fetal Stomach	stomach
4	chr18:12859600-12876800	Weak transcription	Primary T cells from cord blood	blood
5	chr18:12862800-12877000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr18:12863000-12879000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr18:12863000-12879200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr18:12863200-12879000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr18:12863200-12879800	Weak transcription	Hela-S3	cervix
10	chr18:12863200-12880200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr18:12863400-12875400	Weak transcription	HepG2	liver
12	chr18:12863400-12875800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr18:12863400-12879200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr18:12863400-12879800	Weak transcription	NHEK	skin
15	chr18:12863400-12881400	Weak transcription	Right Atrium	heart
16	chr18:12863600-12875600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr18:12863600-12876200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr18:12863600-12880000	Weak transcription	Esophagus	oesophagus
19	chr18:12863600-12882000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr18:12863800-12875600	Weak transcription	Primary B cells from peripheral blood	blood
21	chr18:12863800-12878600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr18:12863800-12880000	Weak transcription	Small Intestine	intestine
23	chr18:12863800-12880200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr18:12864400-12876400	Weak transcription	Primary B cells from cord blood	blood
25	chr18:12864400-12876800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr18:12864400-12880000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr18:12864800-12878600	Weak transcription	Lung	lung
28	chr18:12865000-12881800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr18:12865200-12879800	Weak transcription	Fetal Lung	lung
30	chr18:12865800-12879200	Weak transcription	Pancreas	Pancrea
31	chr18:12865800-12883000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr18:12868000-12875800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr18:12868200-12877400	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr18:12868400-12877200	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr18:12868600-12879000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr18:12869000-12879400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr18:12869400-12875800	Weak transcription	Thymus	Thymus
38	chr18:12872400-12881600	Weak transcription	Ovary	ovary
39	chr18:12872800-12875400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr18:12872800-12875800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr18:12872800-12876600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr18:12873000-12875400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr18:12873000-12875600	Weak transcription	GM12878-XiMat	blood
44	chr18:12873000-12876200	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr18:12873000-12876600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr18:12873000-12876800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr18:12873200-12875400	Weak transcription	Liver	Liver
48	chr18:12873200-12875400	Weak transcription	Dnd41	blood
49	chr18:12873200-12875800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr18:12873200-12876000	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links