Variant report

Variant	rs2373588
Chromosome Location	chr7:87153160-87153161
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:87148081..87150146-chr7:87152019..87153582,2	MCF-7	breast:
2	chr7:87151583..87154349-chr7:87159070..87161471,3	K562	blood:
3	chr7:87152849..87157602-chr7:87158405..87161409,4	K562	blood:

Variant related genes	Relation type
ENSG00000085563	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1002205	0.86[CHB][hapmap];0.85[ASN][1000 genomes]
rs10236274	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10248420	0.87[CHB][hapmap];0.86[CHD][hapmap]
rs12668877	0.87[GIH][hapmap];0.82[LWK][hapmap];0.89[YRI][hapmap]
rs13239201	0.83[YRI][hapmap]
rs17149699	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1922240	0.84[LWK][hapmap];0.89[YRI][hapmap]
rs1922241	0.84[LWK][hapmap];0.89[YRI][hapmap]
rs1922243	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.93[ASN][1000 genomes]
rs1922244	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2141849	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2235035	0.84[LWK][hapmap];0.88[YRI][hapmap]
rs2373585	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2373587	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2373589	0.83[CHB][hapmap]
rs3789246	0.87[GIH][hapmap];0.82[LWK][hapmap];0.89[YRI][hapmap]
rs4148744	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4148745	0.94[LWK][hapmap];0.83[YRI][hapmap]
rs4148750	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.93[ASN][1000 genomes]
rs4148751	0.90[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.94[LWK][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.81[TSI][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7779562	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7787082	0.86[CHB][hapmap];0.86[CHD][hapmap]
rs7787569	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7795817	0.87[GIH][hapmap];0.83[YRI][hapmap]
rs956825	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025277	chr7:86299224-87206007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv538999	chr7:86299224-87206007	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv888677	chr7:86802025-87781111	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
4	nsv464622	chr7:86832603-87541248	Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv607725	chr7:86832603-87541248	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv1026153	chr7:86905796-87258822	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
7	nsv1015862	chr7:87075394-88049798	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
8	nsv888691	chr7:87141814-87157051	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv981545	chr7:87150781-87153458	Weak transcription Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:87132800-87153400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr7:87133400-87164400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr7:87135400-87198000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr7:87138400-87173400	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr7:87138800-87160600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr7:87138800-87185000	Weak transcription	Primary B cells from cord blood	blood
7	chr7:87139400-87211000	Weak transcription	Primary B cells from peripheral blood	blood
8	chr7:87139600-87197800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr7:87141800-87172800	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr7:87144600-87156600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr7:87144600-87215600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr7:87144800-87157400	Weak transcription	HepG2	liver
13	chr7:87144800-87174000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr7:87144800-87186600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr7:87146200-87163200	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr7:87146200-87228000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr7:87146400-87173000	Weak transcription	Fetal Intestine Large	intestine
18	chr7:87147400-87155200	Weak transcription	Liver	Liver
19	chr7:87148800-87158600	Weak transcription	Placenta	Placenta
20	chr7:87149600-87156200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr7:87150200-87155600	Weak transcription	Primary T cells from cord blood	blood
22	chr7:87151400-87156600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr7:87151600-87156600	Weak transcription	Primary hematopoietic stem cells	blood
24	chr7:87152800-87185200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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