Variant report

Variant	rs7872349
Chromosome Location	chr9:6475893-6475894
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10119350	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13283464	0.91[EUR][1000 genomes]
rs13283631	0.91[EUR][1000 genomes]
rs13283687	0.80[EUR][1000 genomes]
rs13284032	0.87[EUR][1000 genomes]
rs13285035	0.87[EUR][1000 genomes]
rs13285125	0.91[EUR][1000 genomes]
rs13285152	0.80[EUR][1000 genomes]
rs13285458	0.80[EUR][1000 genomes]
rs13285949	0.87[EUR][1000 genomes]
rs13286720	0.87[EUR][1000 genomes]
rs13288875	0.91[EUR][1000 genomes]
rs13290027	0.87[EUR][1000 genomes]
rs13290126	0.87[EUR][1000 genomes]
rs13290488	0.91[EUR][1000 genomes]
rs13291494	0.80[EUR][1000 genomes]
rs13291887	0.91[EUR][1000 genomes]
rs13292030	0.87[EUR][1000 genomes]
rs13294924	0.91[EUR][1000 genomes]
rs13296481	0.80[EUR][1000 genomes]
rs13296692	0.91[EUR][1000 genomes]
rs13299896	0.80[EUR][1000 genomes]
rs13300059	0.91[EUR][1000 genomes]
rs13302032	0.80[EUR][1000 genomes]
rs1563	0.80[EUR][1000 genomes]
rs34529113	0.87[EUR][1000 genomes]
rs34530211	0.80[EUR][1000 genomes]
rs34581400	0.80[EUR][1000 genomes]
rs34905133	0.87[EUR][1000 genomes]
rs35301257	0.80[EUR][1000 genomes]
rs35408061	0.80[EUR][1000 genomes]
rs36089474	0.80[EUR][1000 genomes]
rs553048	0.80[EUR][1000 genomes]
rs67797327	0.91[EUR][1000 genomes]
rs72693587	0.80[EUR][1000 genomes]
rs7869419	0.80[EUR][1000 genomes]
rs7875172	0.87[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:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6414600-6477800	Weak transcription	Placenta	Placenta
2	chr9:6435400-6482000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:6438000-6477600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr9:6443600-6477600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr9:6450000-6477600	Weak transcription	Left Ventricle	heart
6	chr9:6450000-6477600	Weak transcription	HSMMtube	muscle
7	chr9:6450000-6477600	Weak transcription	NHLF	lung
8	chr9:6450000-6478600	Weak transcription	Ovary	ovary
9	chr9:6450000-6482800	Weak transcription	Pancreas	Pancrea
10	chr9:6450200-6477400	Weak transcription	Stomach Smooth Muscle	stomach
11	chr9:6450800-6477400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr9:6451000-6477600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr9:6451200-6477600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr9:6452600-6488000	Weak transcription	Colon Smooth Muscle	Colon
15	chr9:6452800-6476000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr9:6452800-6481600	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr9:6452800-6485400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr9:6452800-6485400	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr9:6456200-6477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr9:6456200-6477800	Weak transcription	Fetal Brain Female	brain
21	chr9:6458600-6476000	Weak transcription	Fetal Muscle Leg	muscle
22	chr9:6458600-6482800	Weak transcription	Gastric	stomach
23	chr9:6458800-6497200	Weak transcription	Colonic Mucosa	Colon
24	chr9:6459000-6477600	Weak transcription	Fetal Kidney	kidney
25	chr9:6459200-6477600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr9:6459200-6477800	Weak transcription	Brain Germinal Matrix	brain
27	chr9:6459400-6501800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:6460600-6486800	Weak transcription	Rectal Smooth Muscle	rectum
29	chr9:6460800-6477600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr9:6461400-6486000	Weak transcription	K562	blood
31	chr9:6462600-6477600	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr9:6463600-6518400	Weak transcription	Fetal Brain Male	brain
33	chr9:6463800-6476600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr9:6463800-6477000	Weak transcription	Lung	lung
35	chr9:6464000-6476000	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr9:6465000-6477400	Weak transcription	NH-A	brain
37	chr9:6466600-6476600	Weak transcription	Fetal Intestine Small	intestine
38	chr9:6466800-6476600	Weak transcription	Fetal Stomach	stomach
39	chr9:6467400-6477600	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr9:6467400-6477600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr9:6467400-6486200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr9:6467400-6497200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr9:6467600-6476000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr9:6467600-6477400	Weak transcription	HMEC	breast
45	chr9:6468200-6477600	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr9:6468600-6476000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr9:6468600-6477400	Weak transcription	Fetal Lung	lung
48	chr9:6468600-6481600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr9:6468800-6476600	Weak transcription	Fetal Muscle Trunk	muscle
50	chr9:6468800-6476800	Weak transcription	Liver	Liver

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