Variant report

Variant	rs7869419
Chromosome Location	chr9:6469964-6469965
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10115294	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10119350	0.84[EUR][1000 genomes]
rs10123132	1.00[CEU][hapmap]
rs10123605	0.92[EUR][1000 genomes]
rs10125053	1.00[CEU][hapmap]
rs10125090	1.00[CEU][hapmap]
rs10125313	1.00[CEU][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes]
rs1037885	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10491838	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10739096	0.92[EUR][1000 genomes]
rs10739101	0.96[EUR][1000 genomes]
rs10739103	1.00[CEU][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10739104	0.85[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10758762	0.88[EUR][1000 genomes]
rs10758763	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10758768	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10815400	0.92[EUR][1000 genomes]
rs10815401	0.92[EUR][1000 genomes]
rs10815429	0.84[EUR][1000 genomes]
rs10815430	1.00[CEU][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes]
rs1156869	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs12346381	0.92[EUR][1000 genomes]
rs1322170	0.87[AMR][1000 genomes]
rs13283464	0.88[EUR][1000 genomes]
rs13283631	0.88[EUR][1000 genomes]
rs13283687	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13284032	1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs13284392	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13285035	1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13285125	0.88[EUR][1000 genomes]
rs13285152	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13285458	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13285949	0.84[EUR][1000 genomes]
rs13286720	0.84[EUR][1000 genomes]
rs13288875	0.88[EUR][1000 genomes]
rs13290027	0.84[EUR][1000 genomes]
rs13290126	1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs13290488	0.88[EUR][1000 genomes]
rs13291494	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13291887	0.88[EUR][1000 genomes]
rs13292030	0.84[EUR][1000 genomes]
rs13293015	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13293673	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13294924	0.88[EUR][1000 genomes]
rs13296481	1.00[CEU][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13296692	0.88[EUR][1000 genomes]
rs13298872	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13299896	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13300059	0.88[EUR][1000 genomes]
rs13302032	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1381038	0.88[EUR][1000 genomes]
rs1407357	0.88[EUR][1000 genomes]
rs1407358	0.88[EUR][1000 genomes]
rs2019737	0.88[EUR][1000 genomes]
rs2381438	0.80[EUR][1000 genomes]
rs28615746	0.92[EUR][1000 genomes]
rs2890707	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs34529113	0.84[EUR][1000 genomes]
rs34530211	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34581400	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34905133	0.84[EUR][1000 genomes]
rs35301257	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35408061	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36089474	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3847262	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs3858051	0.88[EUR][1000 genomes]
rs4008347	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs424119	0.96[EUR][1000 genomes]
rs4475552	0.80[EUR][1000 genomes]
rs4742172	1.00[CEU][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap]
rs4742177	0.88[EUR][1000 genomes]
rs4742180	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4742198	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4742200	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4742203	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs503315	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs553048	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6477067	0.88[EUR][1000 genomes]
rs67541153	0.88[EUR][1000 genomes]
rs67797327	0.88[EUR][1000 genomes]
rs7021445	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7031407	0.92[EUR][1000 genomes]
rs7031967	0.88[EUR][1000 genomes]
rs7032411	0.81[AMR][1000 genomes]
rs7035574	0.84[EUR][1000 genomes]
rs7036990	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7039968	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7040374	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7041863	1.00[CEU][hapmap]
rs7043824	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7043887	0.92[EUR][1000 genomes]
rs7044749	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7045164	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs7048431	0.80[EUR][1000 genomes]
rs72693587	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7350177	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7851921	0.92[EUR][1000 genomes]
rs7852138	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7858373	0.88[EUR][1000 genomes]
rs7859139	0.88[EUR][1000 genomes]
rs7864212	0.88[EUR][1000 genomes]
rs7872349	0.80[EUR][1000 genomes]
rs7873206	0.92[EUR][1000 genomes]
rs7874969	0.93[YRI][hapmap]
rs7875172	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs898673	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs922221	0.87[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs993952	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv933124	chr9:6099101-6644738	Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv1029000	chr9:6188652-6687205	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
5	nsv1031459	chr9:6216913-6657192	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv948562	chr9:6222553-6684955	Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
7	nsv1032350	chr9:6328167-6630686	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv892160	chr9:6364449-6506038	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv892161	chr9:6364449-6523056	Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv831497	chr9:6377501-6612402	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
11	nsv1029766	chr9:6437020-6523605	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6414600-6477800	Weak transcription	Placenta	Placenta
2	chr9:6415600-6471400	Weak transcription	Aorta	Aorta
3	chr9:6435400-6482000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr9:6438000-6477600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr9:6441600-6475200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr9:6443600-6477600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr9:6450000-6471200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:6450000-6473600	Weak transcription	Small Intestine	intestine
9	chr9:6450000-6477600	Weak transcription	Left Ventricle	heart
10	chr9:6450000-6477600	Weak transcription	HSMMtube	muscle
11	chr9:6450000-6477600	Weak transcription	NHLF	lung
12	chr9:6450000-6478600	Weak transcription	Ovary	ovary
13	chr9:6450000-6482800	Weak transcription	Pancreas	Pancrea
14	chr9:6450200-6477400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:6450800-6477400	Weak transcription	Duodenum Mucosa	Duodenum
16	chr9:6451000-6471200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr9:6451000-6477600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr9:6451200-6472000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:6451200-6475800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr9:6451200-6477600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr9:6452600-6488000	Weak transcription	Colon Smooth Muscle	Colon
22	chr9:6452800-6472200	Weak transcription	Fetal Heart	heart
23	chr9:6452800-6476000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr9:6452800-6481600	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr9:6452800-6485400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr9:6452800-6485400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr9:6456000-6471200	Weak transcription	Thymus	Thymus
28	chr9:6456200-6477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr9:6456200-6477800	Weak transcription	Fetal Brain Female	brain
30	chr9:6458600-6476000	Weak transcription	Fetal Muscle Leg	muscle
31	chr9:6458600-6482800	Weak transcription	Gastric	stomach
32	chr9:6458800-6497200	Weak transcription	Colonic Mucosa	Colon
33	chr9:6459000-6477600	Weak transcription	Fetal Kidney	kidney
34	chr9:6459200-6477600	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr9:6459200-6477800	Weak transcription	Brain Germinal Matrix	brain
36	chr9:6459400-6501800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr9:6460600-6486800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr9:6460800-6471000	Weak transcription	Osteobl	bone
39	chr9:6460800-6475400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr9:6460800-6477600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr9:6461400-6486000	Weak transcription	K562	blood
42	chr9:6462200-6470200	Strong transcription	Dnd41	blood
43	chr9:6462600-6475800	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr9:6462600-6477600	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr9:6463200-6475800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr9:6463400-6475400	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr9:6463600-6518400	Weak transcription	Fetal Brain Male	brain
48	chr9:6463800-6476600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr9:6463800-6477000	Weak transcription	Lung	lung
50	chr9:6464000-6471200	Weak transcription	Fetal Intestine Large	intestine

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