Variant report

Variant	rs1882479
Chromosome Location	chr7:87190086-87190087
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10225473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10240953	1.00[YRI][hapmap]
rs10244266	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10246696	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10248420	0.87[CEU][hapmap]
rs10263741	0.81[YRI][hapmap]
rs10268314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10274441	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10274587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10276603	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10280101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10280623	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11760837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11772987	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11972405	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11979702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11983225	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1202171	0.88[JPT][hapmap]
rs1202175	0.88[JPT][hapmap]
rs1202180	0.88[JPT][hapmap]
rs1202181	0.88[JPT][hapmap]
rs1202182	0.88[JPT][hapmap]
rs1202185	0.88[JPT][hapmap]
rs1202186	0.88[JPT][hapmap]
rs12334183	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12720067	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1989830	0.88[JPT][hapmap]
rs2032583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2235015	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2235040	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2235067	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2373589	0.88[CEU][hapmap]
rs28371078	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28401781	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28681479	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28718458	0.86[ASN][1000 genomes]
rs4148739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4148740	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4148742	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55912869	0.87[ASN][1000 genomes]
rs56243536	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60412009	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66867614	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7787082	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 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	esv1800518	chr7:87183354-87190955	Strong transcription Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:87135400-87198000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr7:87139400-87211000	Weak transcription	Primary B cells from peripheral blood	blood
3	chr7:87139600-87197800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr7:87144600-87215600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr7:87146200-87228000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr7:87174600-87193400	Weak transcription	Fetal Intestine Large	intestine
7	chr7:87174600-87219800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr7:87175400-87195000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr7:87178400-87193600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr7:87179600-87193600	Weak transcription	HepG2	liver
11	chr7:87179600-87212800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr7:87180600-87190800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr7:87183200-87194200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:87183600-87193400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr7:87183800-87193400	Weak transcription	Liver	Liver
16	chr7:87183800-87194800	Weak transcription	Primary T cells from cord blood	blood
17	chr7:87188400-87191800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr7:87188800-87190200	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr7:87188800-87190600	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr7:87188800-87191000	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr7:87188800-87191000	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr7:87189000-87190400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr7:87189000-87191800	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr7:87189000-87191800	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr7:87189400-87191800	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr7:87189800-87191800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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