Variant report

Variant	rs7038109
Chromosome Location	chr9:5906279-5906280
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs17494996	0.84[AMR][1000 genomes]
rs7865566	0.84[AMR][1000 genomes]
rs7874032	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017103	chr9:5509431-5987907	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised 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	31 gene(s)	inside rSNPs	diseases
2	nsv539965	chr9:5509431-5987907	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	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
5	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
6	nsv892155	chr9:5825768-6044937	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv892156	chr9:5892375-6011757	Weak transcription Genic enhancers Strong transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:5840400-5921600	Weak transcription	Right Ventricle	heart
2	chr9:5859000-5906600	Weak transcription	Ovary	ovary
3	chr9:5859200-5919800	Weak transcription	Fetal Brain Female	brain
4	chr9:5871000-5920000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:5883000-5906400	Weak transcription	Fetal Brain Male	brain
6	chr9:5884600-5910200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:5886800-5920400	Weak transcription	GM12878-XiMat	blood
8	chr9:5886800-5920600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr9:5886800-5922000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr9:5887000-5921600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr9:5892600-5921600	Weak transcription	Colon Smooth Muscle	Colon
12	chr9:5893000-5920000	Weak transcription	Thymus	Thymus
13	chr9:5893200-5908200	Weak transcription	Primary hematopoietic stem cells	blood
14	chr9:5894000-5910400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:5894400-5920400	Weak transcription	NH-A	brain
16	chr9:5894600-5910400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr9:5894600-5919800	Weak transcription	Rectal Smooth Muscle	rectum
18	chr9:5895000-5908600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr9:5895800-5910400	Weak transcription	NHDF-Ad	bronchial
20	chr9:5896000-5921600	Weak transcription	Lung	lung
21	chr9:5896200-5920200	Weak transcription	Psoas Muscle	Psoas
22	chr9:5896200-5920800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr9:5896200-5921200	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr9:5896400-5919800	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:5896400-5921800	Weak transcription	Brain Angular Gyrus	brain
26	chr9:5896600-5919600	Weak transcription	Brain Anterior Caudate	brain
27	chr9:5896600-5919600	Weak transcription	Brain Substantia Nigra	brain
28	chr9:5896800-5919800	Weak transcription	Fetal Lung	lung
29	chr9:5896800-5920400	Weak transcription	Fetal Thymus	thymus
30	chr9:5897000-5921600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr9:5897400-5919800	Weak transcription	Placenta	Placenta
32	chr9:5897400-5922200	Weak transcription	Pancreas	Pancrea
33	chr9:5897600-5920000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr9:5897600-5920200	Weak transcription	HSMMtube	muscle
35	chr9:5897600-5921400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr9:5897600-5921800	Weak transcription	Spleen	Spleen
37	chr9:5897800-5919600	Weak transcription	Brain Hippocampus Middle	brain
38	chr9:5897800-5921800	Weak transcription	Gastric	stomach
39	chr9:5898000-5908000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr9:5898000-5909800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr9:5898000-5919800	Weak transcription	Brain Germinal Matrix	brain
42	chr9:5898000-5920400	Weak transcription	Aorta	Aorta
43	chr9:5898000-5921800	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr9:5898400-5921200	Weak transcription	Colonic Mucosa	Colon
45	chr9:5898400-5947200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr9:5898800-5920400	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr9:5898800-5921800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr9:5899000-5920400	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr9:5899200-5920000	Weak transcription	Fetal Muscle Trunk	muscle
50	chr9:5899400-5919800	Weak transcription	Left Ventricle	heart

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