Variant report

Variant	rs1770723
Chromosome Location	chr6:106995198-106995199
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:106988236..106991971-chr6:106994585..106996382,3	MCF-7	breast:
2	chr6:106958366..106960246-chr6:106994046..106995660,2	MCF-7	breast:
3	chr6:106982665..106985601-chr6:106993025..106995759,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112297	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1111830	0.82[ASN][1000 genomes]
rs1613722	1.00[ASN][1000 genomes]
rs1616375	1.00[ASN][1000 genomes]
rs1676008	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1676010	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1676023	0.86[ASN][1000 genomes]
rs1676024	0.93[ASN][1000 genomes]
rs1676025	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1676028	1.00[ASN][1000 genomes]
rs17565194	0.89[ASN][1000 genomes]
rs1770718	0.93[ASN][1000 genomes]
rs1770719	0.93[ASN][1000 genomes]
rs1770721	0.93[ASN][1000 genomes]
rs1770722	0.96[ASN][1000 genomes]
rs1770733	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1799693	1.00[EUR][1000 genomes]
rs2066201	0.93[ASN][1000 genomes]
rs2247335	0.93[ASN][1000 genomes]
rs2615209	1.00[ASN][1000 genomes]
rs3747789	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4946762	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6902745	1.00[ASN][1000 genomes]
rs72945076	0.89[ASN][1000 genomes]
rs7771502	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs783395	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783396	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783401	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783414	0.83[EUR][1000 genomes]
rs783416	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs783418	0.83[EUR][1000 genomes]
rs9386565	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
4	nsv1017419	chr6:106984669-106997000	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106961000-107001400	Weak transcription	Gastric	stomach
2	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
3	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:106979000-107001400	Weak transcription	Pancreas	Pancrea
5	chr6:106981600-106995600	Weak transcription	Colonic Mucosa	Colon
6	chr6:106982400-107000800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:106985800-107019200	Weak transcription	Aorta	Aorta
8	chr6:106988200-107001400	Weak transcription	Lung	lung
9	chr6:106988400-106995600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr6:106989800-106995800	Weak transcription	Fetal Stomach	stomach
11	chr6:106991200-106999600	Strong transcription	Dnd41	blood
12	chr6:106992000-106995400	Weak transcription	Colon Smooth Muscle	Colon
13	chr6:106992600-106996400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr6:106992600-106996600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:106992800-106995800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr6:106993200-106996400	Genic enhancers	Primary B cells from peripheral blood	blood
17	chr6:106993200-106996600	Enhancers	Primary hematopoietic stem cells	blood
18	chr6:106993400-106995200	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:106993400-106996000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
20	chr6:106993400-106996000	Enhancers	Adipose Nuclei	Adipose
21	chr6:106993600-106996200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:106993600-106998400	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr6:106993800-106995800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
24	chr6:106993800-106996200	Enhancers	HSMM	muscle
25	chr6:106993800-106996400	Enhancers	Fetal Lung	lung
26	chr6:106993800-106996400	Enhancers	Osteobl	bone
27	chr6:106993800-106996600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:106993800-106996600	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr6:106993800-106996600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr6:106993800-106996600	Enhancers	NH-A	brain
31	chr6:106994000-106995200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr6:106994000-106996000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr6:106994000-106996000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr6:106994000-106996600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:106994000-106996600	Enhancers	HepG2	liver
36	chr6:106994000-107017800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr6:106994200-106995200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr6:106994200-106995800	Enhancers	ES-I3 Cell Line	embryonic stem cell
39	chr6:106994200-106996400	Enhancers	A549	lung
40	chr6:106994200-106997000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:106994200-107000200	Weak transcription	Esophagus	oesophagus
42	chr6:106994200-107009000	Weak transcription	Left Ventricle	heart
43	chr6:106994200-107019400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:106994200-107019600	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr6:106994400-106995200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
46	chr6:106994400-106995200	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr6:106994400-106996600	Enhancers	Fetal Thymus	thymus
48	chr6:106994400-107000800	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr6:106994600-106995200	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr6:106994600-106995200	Enhancers	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links