Variant report

Variant	rs3942589
Chromosome Location	chr7:96334203-96334204
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	chr7:96332578..96335195-chr7:96337104..96339616,3	MCF-7	breast:
2	chr7:96328017..96334744-chr7:96336638..96340629,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000127922	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10226466	1.00[EUR][1000 genomes]
rs10234669	0.91[EUR][1000 genomes]
rs10236162	0.87[EUR][1000 genomes]
rs10242066	0.95[EUR][1000 genomes]
rs10246774	1.00[EUR][1000 genomes]
rs10249910	0.87[EUR][1000 genomes]
rs10252396	1.00[EUR][1000 genomes]
rs10259875	1.00[EUR][1000 genomes]
rs10270175	1.00[EUR][1000 genomes]
rs10270486	1.00[EUR][1000 genomes]
rs10273237	1.00[EUR][1000 genomes]
rs10276660	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10278521	0.91[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.82[TSI][hapmap];0.91[EUR][1000 genomes]
rs1581538	0.95[EUR][1000 genomes]
rs1608739	0.95[EUR][1000 genomes]
rs17167680	0.87[EUR][1000 genomes]
rs17167699	1.00[EUR][1000 genomes]
rs17413240	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17495340	0.86[EUR][1000 genomes]
rs1917482	0.95[EUR][1000 genomes]
rs2140741	0.95[EUR][1000 genomes]
rs2272	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34619035	0.86[AMR][1000 genomes]
rs55902035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67368115	0.91[EUR][1000 genomes]
rs67548673	1.00[EUR][1000 genomes]
rs67658953	0.95[EUR][1000 genomes]
rs73228327	0.95[EUR][1000 genomes]
rs73228328	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73228329	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73228347	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73228355	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73228356	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73228360	1.00[EUR][1000 genomes]
rs73228364	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7341440	1.00[EUR][1000 genomes]
rs952005	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv888756	chr7:95937098-96343665	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv532174	chr7:96221237-96375826	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv831065	chr7:96275832-96436031	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:96299000-96337400	Weak transcription	NHLF	lung
2	chr7:96300000-96337600	Weak transcription	NH-A	brain
3	chr7:96300200-96337000	Weak transcription	Fetal Kidney	kidney
4	chr7:96302200-96337800	Weak transcription	Thymus	Thymus
5	chr7:96303200-96337400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr7:96303200-96338000	Weak transcription	Aorta	Aorta
7	chr7:96303200-96338200	Weak transcription	Gastric	stomach
8	chr7:96309200-96337200	Weak transcription	Brain Anterior Caudate	brain
9	chr7:96309600-96337200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr7:96311000-96338400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr7:96311400-96338000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr7:96312200-96337600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr7:96313400-96338000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr7:96314200-96337800	Weak transcription	Fetal Muscle Leg	muscle
15	chr7:96314800-96336200	Weak transcription	Fetal Brain Female	brain
16	chr7:96316000-96337800	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr7:96316400-96337000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr7:96317800-96337200	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr7:96318600-96337800	Weak transcription	Fetal Stomach	stomach
20	chr7:96319200-96337400	Weak transcription	Small Intestine	intestine
21	chr7:96319200-96338600	Weak transcription	Spleen	Spleen
22	chr7:96319400-96338400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr7:96319600-96337800	Weak transcription	Colonic Mucosa	Colon
24	chr7:96321000-96335400	Weak transcription	Primary hematopoietic stem cells	blood
25	chr7:96321000-96337200	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr7:96321000-96337400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr7:96321200-96336000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr7:96321200-96337400	Weak transcription	HSMMtube	muscle
29	chr7:96321600-96337000	Weak transcription	NHDF-Ad	bronchial
30	chr7:96322000-96338200	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr7:96322200-96336600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr7:96322800-96336400	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr7:96323000-96337400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr7:96323200-96337400	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr7:96323400-96337000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr7:96323400-96337200	Weak transcription	HMEC	breast
37	chr7:96323600-96337400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr7:96323600-96337800	Weak transcription	Fetal Intestine Large	intestine
39	chr7:96323600-96337800	Weak transcription	Right Ventricle	heart
40	chr7:96323800-96335200	Weak transcription	HSMM	muscle
41	chr7:96323800-96337000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr7:96323800-96337400	Weak transcription	Duodenum Mucosa	Duodenum
43	chr7:96323800-96337800	Weak transcription	Fetal Thymus	thymus
44	chr7:96324200-96336000	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr7:96324600-96336000	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr7:96325200-96337800	Weak transcription	Placenta	Placenta
47	chr7:96325600-96337200	Weak transcription	Fetal Lung	lung
48	chr7:96327600-96336400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr7:96328000-96337200	Weak transcription	HUVEC	blood vessel
50	chr7:96328200-96337000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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