Variant report

Variant	rs10819779
Chromosome Location	chr9:103208506-103208507
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	chr9:103188632..103190221-chr9:103206749..103208977,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000066697	Chromatin interaction

Extended variants
information (count: 109 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs1000477	0.87[ASN][1000 genomes]
rs1041565	0.95[ASN][1000 genomes]
rs10465118	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10465119	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10465145	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10512270	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10512271	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10819774	0.87[ASN][1000 genomes]
rs10819775	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10819776	0.96[ASN][1000 genomes]
rs10819781	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10819782	0.98[ASN][1000 genomes]
rs10819785	0.95[ASN][1000 genomes]
rs10819786	0.95[ASN][1000 genomes]
rs10819787	0.95[ASN][1000 genomes]
rs10819788	0.95[ASN][1000 genomes]
rs10819789	0.82[ASN][1000 genomes]
rs10819790	0.81[ASN][1000 genomes]
rs10989085	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10989090	0.92[ASN][1000 genomes]
rs10989091	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989092	0.96[ASN][1000 genomes]
rs10989093	0.92[ASN][1000 genomes]
rs10989094	0.96[ASN][1000 genomes]
rs10989095	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10989097	0.98[ASN][1000 genomes]
rs10989099	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989103	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989105	0.95[ASN][1000 genomes]
rs10989107	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989108	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989111	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989112	0.95[ASN][1000 genomes]
rs10989113	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989114	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989115	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10989120	0.95[ASN][1000 genomes]
rs10989121	0.87[ASN][1000 genomes]
rs10989123	0.95[ASN][1000 genomes]
rs10989124	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989130	0.82[ASN][1000 genomes]
rs10989131	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989134	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10989135	0.81[ASN][1000 genomes]
rs10989140	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989142	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10989143	0.81[ASN][1000 genomes]
rs10989144	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10989145	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989147	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989150	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989151	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10989154	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11793014	0.95[ASN][1000 genomes]
rs12004257	0.97[ASN][1000 genomes]
rs12005378	0.85[ASN][1000 genomes]
rs12056981	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12057047	0.95[ASN][1000 genomes]
rs12236071	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12236952	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12237166	0.98[ASN][1000 genomes]
rs12237481	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12238560	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12682741	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12683122	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12683548	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12684454	0.98[ASN][1000 genomes]
rs13286805	0.95[ASN][1000 genomes]
rs13292589	0.95[ASN][1000 genomes]
rs16919136	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16919174	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1930237	0.82[ASN][1000 genomes]
rs1930245	0.98[ASN][1000 genomes]
rs1930246	0.98[ASN][1000 genomes]
rs2026423	0.82[ASN][1000 genomes]
rs2069236	0.86[ASN][1000 genomes]
rs2183990	0.87[ASN][1000 genomes]
rs2183991	0.87[ASN][1000 genomes]
rs2274881	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2274882	0.80[ASN][1000 genomes]
rs34471402	0.95[ASN][1000 genomes]
rs55827987	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56012200	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56020062	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56050588	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56122790	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56163523	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56170030	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59565932	0.82[ASN][1000 genomes]
rs59611728	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7024666	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7028822	0.87[ASN][1000 genomes]
rs7029001	0.82[ASN][1000 genomes]
rs7034154	0.98[ASN][1000 genomes]
rs7041933	0.98[ASN][1000 genomes]
rs7042669	0.95[ASN][1000 genomes]
rs7046659	0.98[ASN][1000 genomes]
rs7049241	0.95[ASN][1000 genomes]
rs72735107	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72735110	0.87[ASN][1000 genomes]
rs72735119	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72735122	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72735140	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72735148	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72735154	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7869933	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103190400-103214200	Weak transcription	Thymus	Thymus
2	chr9:103190600-103214400	Weak transcription	Primary B cells from cord blood	blood
3	chr9:103190600-103224600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:103190800-103213200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:103190800-103217600	Weak transcription	Fetal Intestine Large	intestine
6	chr9:103191200-103214200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr9:103191600-103209200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr9:103191600-103209200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr9:103191600-103212800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:103191600-103213000	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr9:103191600-103214400	Weak transcription	Esophagus	oesophagus
12	chr9:103191800-103217600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr9:103191800-103228000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr9:103192000-103214000	Weak transcription	Colon Smooth Muscle	Colon
15	chr9:103192200-103210600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr9:103192600-103213200	Weak transcription	Fetal Brain Male	brain
17	chr9:103193000-103214400	Weak transcription	Pancreas	Pancrea
18	chr9:103194600-103213200	Weak transcription	Lung	lung
19	chr9:103196200-103226400	Weak transcription	Psoas Muscle	Psoas
20	chr9:103197200-103211600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr9:103198400-103210400	Weak transcription	GM12878-XiMat	blood
22	chr9:103200000-103217000	Weak transcription	K562	blood
23	chr9:103201200-103215600	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr9:103201600-103215400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr9:103202000-103213400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:103202000-103215800	Weak transcription	Fetal Thymus	thymus
27	chr9:103202600-103213800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:103202800-103217400	Weak transcription	Right Ventricle	heart
29	chr9:103203800-103215600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr9:103203800-103217400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr9:103204000-103214000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr9:103204000-103216800	Strong transcription	Osteobl	bone
33	chr9:103204200-103211000	Strong transcription	NH-A	brain
34	chr9:103204200-103214000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr9:103204400-103209400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr9:103204400-103212600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr9:103204600-103221200	Weak transcription	Fetal Kidney	kidney
38	chr9:103204800-103212800	Weak transcription	Adipose Nuclei	Adipose
39	chr9:103204800-103213200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr9:103204800-103213200	Weak transcription	Placenta	Placenta
41	chr9:103205000-103208800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr9:103205000-103213000	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr9:103205000-103213600	Weak transcription	Primary B cells from peripheral blood	blood
44	chr9:103205000-103214200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr9:103205000-103214400	Weak transcription	Gastric	stomach
46	chr9:103205000-103216800	Weak transcription	Fetal Intestine Small	intestine
47	chr9:103206000-103208600	Enhancers	Fetal Heart	heart
48	chr9:103206000-103217000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr9:103206200-103212800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr9:103206200-103212800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links