Variant report

Variant	rs9925488
Chromosome Location	chr16:81569866-81569867
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:81560475..81564171-chr16:81564775..81571060,7	K562	blood:
2	chr16:81568196..81570082-chr16:81573508..81576113,2	K562	blood:
3	chr16:81565757..81568380-chr16:81569280..81572909,4	K562	blood:
4	chr16:81569545..81572844-chr16:81574996..81578300,3	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1000455	0.81[CEU][hapmap]
rs10871416	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11639652	0.80[CEU][hapmap]
rs11644696	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12448684	0.92[CEU][hapmap];0.82[CHB][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs12925668	0.88[EUR][1000 genomes]
rs12931651	0.89[EUR][1000 genomes]
rs12932755	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12932885	0.92[CEU][hapmap];0.82[CHB][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];0.81[EUR][1000 genomes]
rs12933858	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2168798	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34485103	0.86[EUR][1000 genomes]
rs4889333	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4889334	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6564885	0.84[CEU][hapmap]
rs7205651	0.82[GIH][hapmap];0.83[MEX][hapmap]
rs876673	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs881214	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs898967	0.92[CEU][hapmap];0.90[JPT][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	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
3	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	37 gene(s)	inside rSNPs	diseases
4	nsv1057791	chr16:81515036-81644651	Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
5	nsv542993	chr16:81515036-81644651	Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
6	nsv457576	chr16:81525637-81579433	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
7	nsv573360	chr16:81525637-81579433	Bivalent Enhancer Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1062659	chr16:81547280-81668786	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
9	nsv520382	chr16:81567554-81571725	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region miRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81547400-81571600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr16:81547800-81571600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr16:81555400-81576800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr16:81555800-81572200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr16:81556000-81590000	Weak transcription	Dnd41	blood
6	chr16:81556200-81577600	Weak transcription	GM12878-XiMat	blood
7	chr16:81556800-81571400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr16:81560600-81584800	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr16:81560800-81571600	Weak transcription	Fetal Brain Male	brain
10	chr16:81560800-81571600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr16:81560800-81572200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr16:81561000-81576400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr16:81561000-81576800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr16:81561400-81571600	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr16:81561400-81571600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr16:81561400-81572600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr16:81561400-81575000	Weak transcription	HUVEC	blood vessel
18	chr16:81561400-81576200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr16:81561400-81576600	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr16:81561600-81571400	Weak transcription	Right Atrium	heart
21	chr16:81561600-81571600	Weak transcription	Fetal Lung	lung
22	chr16:81561600-81573000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr16:81561600-81576600	Weak transcription	Right Ventricle	heart
24	chr16:81561600-81577600	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr16:81562000-81578000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr16:81562400-81572800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr16:81562600-81571800	Weak transcription	Stomach Mucosa	stomach
28	chr16:81563600-81578000	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr16:81563800-81572600	Weak transcription	Brain Germinal Matrix	brain
30	chr16:81564600-81570000	Enhancers	Liver	Liver
31	chr16:81564800-81572200	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr16:81564800-81572600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr16:81565000-81572600	Weak transcription	Brain Anterior Caudate	brain
34	chr16:81565200-81571600	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr16:81565200-81572600	Weak transcription	Brain Angular Gyrus	brain
36	chr16:81565200-81576400	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr16:81565200-81588200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr16:81565400-81571400	Weak transcription	Fetal Muscle Leg	muscle
39	chr16:81565400-81571600	Weak transcription	Left Ventricle	heart
40	chr16:81565400-81571600	Weak transcription	K562	blood
41	chr16:81565400-81572800	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr16:81565800-81571200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr16:81565800-81573000	Weak transcription	Fetal Thymus	thymus
44	chr16:81566000-81571600	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr16:81566600-81571600	Weak transcription	Spleen	Spleen
46	chr16:81566600-81572800	Weak transcription	Lung	lung
47	chr16:81566600-81584600	Weak transcription	Fetal Brain Female	brain
48	chr16:81566800-81570400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr16:81566800-81571600	Weak transcription	Small Intestine	intestine
50	chr16:81566800-81572200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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