Variant report

Variant	rs11574636
Chromosome Location	chr16:31368835-31368836
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:31190496..31192214-chr16:31368075..31369676,2	MCF-7	breast:
2	chr16:31366361..31368060-chr16:31368172..31370932,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ITGAX-2	chr16:31368352-31369183	NONHSAT141896

Variant related genes	Relation type
ENSG00000140678	Chromatin interaction
ENSG00000089280	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs11150615	0.84[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1143678	1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1143679	1.00[ASN][1000 genomes]
rs1143683	1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11574637	0.90[CEU][hapmap];1.00[CHB][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11859300	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11859349	1.00[ASN][1000 genomes]
rs11860650	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11861161	1.00[ASN][1000 genomes]
rs11864503	1.00[ASN][1000 genomes]
rs11864541	1.00[ASN][1000 genomes]
rs11864813	1.00[ASN][1000 genomes]
rs11865746	1.00[ASN][1000 genomes]
rs12102768	1.00[ASN][1000 genomes]
rs12103025	1.00[ASN][1000 genomes]
rs12917874	1.00[ASN][1000 genomes]
rs12920597	1.00[ASN][1000 genomes]
rs12928725	1.00[ASN][1000 genomes]
rs12928810	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs13331557	1.00[ASN][1000 genomes]
rs13338069	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs28385574	1.00[ASN][1000 genomes]
rs28773820	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28821928	0.88[EUR][1000 genomes]
rs28825532	1.00[ASN][1000 genomes]
rs28834423	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28855735	1.00[ASN][1000 genomes]
rs34082782	1.00[ASN][1000 genomes]
rs34572943	1.00[ASN][1000 genomes]
rs34767000	1.00[ASN][1000 genomes]
rs34770440	1.00[ASN][1000 genomes]
rs35314490	1.00[ASN][1000 genomes]
rs35383035	1.00[ASN][1000 genomes]
rs35472514	1.00[ASN][1000 genomes]
rs36001237	1.00[ASN][1000 genomes]
rs36055763	1.00[ASN][1000 genomes]
rs41476751	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4548893	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4632147	1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58408589	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59559257	1.00[ASN][1000 genomes]
rs60312440	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6565227	1.00[ASN][1000 genomes]
rs6565228	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs67898294	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71390269	1.00[ASN][1000 genomes]
rs71391210	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7184339	1.00[ASN][1000 genomes]
rs7184677	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7187713	1.00[ASN][1000 genomes]
rs7190018	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7190807	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7192039	1.00[ASN][1000 genomes]
rs7193268	1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7198598	1.00[ASN][1000 genomes]
rs7199496	1.00[ASN][1000 genomes]
rs7199532	1.00[ASN][1000 genomes]
rs7200615	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7204735	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7206312	1.00[ASN][1000 genomes]
rs73534420	1.00[ASN][1000 genomes]
rs7499077	1.00[CHB][hapmap]
rs8056276	1.00[ASN][1000 genomes]
rs8056944	1.00[ASN][1000 genomes]
rs9745421	1.00[ASN][1000 genomes]
rs9888739	1.00[ASN][1000 genomes]
rs9888879	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9922766	1.00[ASN][1000 genomes]
rs9923357	1.00[ASN][1000 genomes]
rs9923767	1.00[ASN][1000 genomes]
rs9928372	1.00[ASN][1000 genomes]
rs9928749	1.00[ASN][1000 genomes]
rs9930524	1.00[ASN][1000 genomes]
rs9933520	1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9933937	1.00[ASN][1000 genomes]
rs9936831	1.00[ASN][1000 genomes]
rs9937645	1.00[ASN][1000 genomes]
rs9937837	1.00[CHB][hapmap]
rs9938063	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9939679	1.00[ASN][1000 genomes]
rs9940397	1.00[ASN][1000 genomes]

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	nsv1059459	chr16:31299088-31462251	Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv542901	chr16:31299088-31462251	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	esv3392534	chr16:31303038-31573066	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	104 gene(s)	inside rSNPs	diseases
4	nsv1058992	chr16:31337455-31414881	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv542902	chr16:31337455-31414881	Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv1061980	chr16:31338462-31415471	Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv833194	chr16:31358179-31528545	Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	97 gene(s)	inside rSNPs	diseases
8	nsv1059610	chr16:31368699-31421660	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:31343000-31400800	Weak transcription	Right Atrium	heart
2	chr16:31364400-31370200	Enhancers	Primary T cells fromperipheralblood	blood
3	chr16:31365600-31369200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
4	chr16:31365600-31369800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr16:31366400-31369200	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr16:31366600-31369800	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr16:31366600-31369800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr16:31366800-31369000	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr16:31366800-31369200	Weak transcription	Lung	lung
10	chr16:31367000-31370000	Enhancers	Primary B cells from peripheral blood	blood
11	chr16:31367800-31369600	Genic enhancers	Spleen	Spleen
12	chr16:31368000-31369000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr16:31368000-31369600	Transcr. at gene 5' and 3'	Primary neutrophils fromperipheralblood	blood
14	chr16:31368200-31369600	Enhancers	Colonic Mucosa	Colon
15	chr16:31368200-31369600	Enhancers	Fetal Muscle Trunk	muscle
16	chr16:31368200-31369800	Enhancers	Fetal Muscle Leg	muscle
17	chr16:31368400-31369200	Enhancers	Psoas Muscle	Psoas
18	chr16:31368400-31369600	Enhancers	Fetal Thymus	thymus
19	chr16:31368600-31369000	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
20	chr16:31368600-31369000	Enhancers	HSMMtube	muscle
21	chr16:31368600-31369000	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
22	chr16:31368600-31369200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
23	chr16:31368600-31369400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr16:31368600-31369600	Enhancers	Left Ventricle	heart
25	chr16:31368600-31369600	Enhancers	Right Ventricle	heart
26	chr16:31368600-31369600	Enhancers	GM12878-XiMat	blood
27	chr16:31368600-31372600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr16:31368800-31369000	Flanking Active TSS	Primary hematopoietic stem cells	blood
29	chr16:31368800-31369200	Transcr. at gene 5' and 3'	Primary monocytes fromperipheralblood	blood
30	chr16:31368800-31369200	Flanking Active TSS	Primary B cells from cord blood	blood
31	chr16:31368800-31369400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr16:31368800-31369400	Enhancers	Fetal Heart	heart
33	chr16:31368800-31373000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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