Variant report

Variant	rs817838
Chromosome Location	chr9:110098732-110098733
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110045522..110047351-chr9:110097744..110099500,2	MCF-7	breast:
2	chr9:110044860..110047881-chr9:110095955..110100656,5	MCF-7	breast:
3	chr9:110097867..110099488-chr9:110212610..110214111,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119318	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10113916	1.00[ASN][1000 genomes]
rs10119641	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10122970	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10481632	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10521083	0.85[AFR][1000 genomes]
rs10739234	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs10739236	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10739238	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10816477	0.85[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10816480	0.88[ASN][1000 genomes]
rs10816485	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10816490	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10816491	1.00[ASN][1000 genomes]
rs10816493	0.87[EUR][1000 genomes]
rs10978775	0.87[ASN][1000 genomes]
rs10978776	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10978777	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10978791	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10978798	0.81[EUR][1000 genomes]
rs12342066	0.87[ASN][1000 genomes]
rs12345455	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12555417	0.87[ASN][1000 genomes]
rs1535765	0.83[EUR][1000 genomes]
rs1805329	1.00[ASN][1000 genomes]
rs1805332	0.87[EUR][1000 genomes]
rs1886134	0.85[AFR][1000 genomes]
rs1969798	0.81[EUR][1000 genomes]
rs1980725	0.81[EUR][1000 genomes]
rs2005143	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2147071	0.83[EUR][1000 genomes]
rs2417776	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2417784	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28534368	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs28769087	0.85[ASN][1000 genomes]
rs28848858	0.87[ASN][1000 genomes]
rs4625087	0.82[EUR][1000 genomes]
rs4978404	0.85[AFR][1000 genomes]
rs4978406	0.85[AFR][1000 genomes]
rs4978844	0.86[EUR][1000 genomes]
rs4978849	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs61701375	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs698475	1.00[ASN][1000 genomes]
rs7019341	0.86[EUR][1000 genomes]
rs7029997	0.83[EUR][1000 genomes]
rs7030631	0.83[EUR][1000 genomes]
rs7031906	0.82[EUR][1000 genomes]
rs7035611	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7036284	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7038737	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7039041	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7040217	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7041137	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7041497	0.85[AFR][1000 genomes]
rs7043962	0.87[EUR][1000 genomes]
rs7856227	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7873745	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs817836	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs817839	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817840	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817841	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817843	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817844	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817845	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs817846	0.81[AFR][1000 genomes]
rs817847	0.93[ASN][1000 genomes]
rs817849	0.88[ASN][1000 genomes]
rs817851	0.88[ASN][1000 genomes]
rs942291	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs942293	0.85[AFR][1000 genomes]
rs9632893	0.92[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9969728	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110070200-110104400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:110070400-110099400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr9:110071400-110103000	Weak transcription	Stomach Mucosa	stomach
4	chr9:110079600-110098800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:110084800-110098800	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:110087600-110103400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr9:110088400-110098800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:110088400-110101400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr9:110088600-110101600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:110089800-110099400	Strong transcription	Placenta	Placenta
11	chr9:110090400-110101800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr9:110091000-110103000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr9:110091200-110099000	Weak transcription	Spleen	Spleen
14	chr9:110092000-110101800	Strong transcription	Primary T cells from cord blood	blood
15	chr9:110093000-110103400	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr9:110093200-110101800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr9:110093200-110103200	Strong transcription	A549	lung
18	chr9:110093200-110103400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr9:110094600-110101600	Strong transcription	H9 Cell Line	embryonic stem cell
20	chr9:110094800-110100800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr9:110094800-110101800	Strong transcription	Fetal Intestine Small	intestine
22	chr9:110095000-110104600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:110095400-110099600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr9:110095400-110101600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr9:110095600-110103400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr9:110096000-110100400	Weak transcription	Fetal Heart	heart
27	chr9:110096000-110103400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr9:110096200-110099000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:110096200-110103200	Weak transcription	Primary B cells from peripheral blood	blood
30	chr9:110096200-110103400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr9:110096600-110103200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr9:110096600-110103400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr9:110096600-110103400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr9:110096800-110098800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr9:110096800-110099200	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr9:110096800-110099400	Weak transcription	Lung	lung
37	chr9:110096800-110100600	Weak transcription	Fetal Brain Female	brain
38	chr9:110096800-110101000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr9:110096800-110102600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr9:110096800-110103400	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr9:110096800-110103400	Weak transcription	Rectal Smooth Muscle	rectum
42	chr9:110096800-110107200	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr9:110097000-110098800	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr9:110097000-110098800	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr9:110097000-110099000	Weak transcription	Brain Angular Gyrus	brain
46	chr9:110097000-110099000	Weak transcription	Brain Cingulate Gyrus	brain
47	chr9:110097000-110099000	Weak transcription	Right Ventricle	heart
48	chr9:110097000-110100000	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr9:110097000-110100400	Weak transcription	Duodenum Mucosa	Duodenum
50	chr9:110097000-110100400	Weak transcription	Ovary	ovary

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