Variant report

Variant	rs9862439
Chromosome Location	chr3:137940324-137940325
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	chr3:137935316..137936932-chr3:137940112..137941643,2	MCF-7	breast:
2	chr3:137904685..137906516-chr3:137939797..137942288,3	K562	blood:

Variant related genes	Relation type
ENSG00000114098	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs13065895	0.81[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs329387	0.87[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs3773766	0.81[ASN][1000 genomes]
rs4678405	0.89[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs6778511	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7612622	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs7631734	0.89[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs774800	0.89[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs774801	0.89[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs939453	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs9822008	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9842193	0.90[EUR][1000 genomes]
rs9853581	0.88[EUR][1000 genomes];0.81[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	nsv530056	chr3:137312356-138161861	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv877536	chr3:137870523-137970907	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:137907600-137941600	Weak transcription	Lung	lung
2	chr3:137907600-137942200	Weak transcription	Pancreas	Pancrea
3	chr3:137907600-137942400	Weak transcription	Spleen	Spleen
4	chr3:137907800-137941000	Weak transcription	Fetal Kidney	kidney
5	chr3:137908000-137940400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:137908200-137940600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:137908400-137941600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr3:137908400-137942200	Weak transcription	NHDF-Ad	bronchial
9	chr3:137908400-137942400	Weak transcription	Stomach Smooth Muscle	stomach
10	chr3:137908400-137956200	Weak transcription	A549	lung
11	chr3:137908800-137941800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr3:137908800-137942200	Weak transcription	Duodenum Mucosa	Duodenum
13	chr3:137910600-137941600	Weak transcription	Hela-S3	cervix
14	chr3:137911000-137941000	Weak transcription	Placenta	Placenta
15	chr3:137911000-137942400	Weak transcription	Brain Germinal Matrix	brain
16	chr3:137911800-137941600	Weak transcription	Fetal Muscle Trunk	muscle
17	chr3:137912000-137941600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr3:137912400-137942400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:137914800-137940600	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr3:137915000-137942000	Weak transcription	Fetal Brain Male	brain
21	chr3:137915400-137941800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:137916000-137941400	Weak transcription	Fetal Intestine Large	intestine
23	chr3:137918600-137941800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr3:137919200-137964800	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr3:137922600-137940400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr3:137922600-137941800	Weak transcription	Esophagus	oesophagus
27	chr3:137922600-137942200	Weak transcription	Stomach Mucosa	stomach
28	chr3:137922800-137941600	Weak transcription	Adipose Nuclei	Adipose
29	chr3:137922800-137941800	Weak transcription	Ovary	ovary
30	chr3:137922800-137942200	Weak transcription	HSMMtube	muscle
31	chr3:137923000-137941600	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr3:137923000-137941600	Weak transcription	Thymus	Thymus
33	chr3:137923200-137941600	Weak transcription	Aorta	Aorta
34	chr3:137923200-137942200	Weak transcription	Right Ventricle	heart
35	chr3:137923400-137940600	Weak transcription	Colon Smooth Muscle	Colon
36	chr3:137924400-137943200	Weak transcription	NH-A	brain
37	chr3:137924600-137941600	Weak transcription	Gastric	stomach
38	chr3:137925600-137942200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr3:137925800-137942200	Weak transcription	Fetal Lung	lung
40	chr3:137926000-137940600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr3:137926000-137941200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr3:137926000-137942200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr3:137926000-137942200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr3:137926000-137942200	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr3:137926000-137951200	Weak transcription	Fetal Heart	heart
46	chr3:137926200-137940400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr3:137926200-137941600	Weak transcription	Brain Angular Gyrus	brain
48	chr3:137926200-137941600	Weak transcription	Fetal Muscle Leg	muscle
49	chr3:137926200-137942200	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr3:137927200-137942400	Weak transcription	Fetal Intestine Small	intestine

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