Variant report

Variant	rs16923033
Chromosome Location	chr9:100412651-100412652
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100412559..100415235-chr9:100423498..100425569,2	MCF-7	breast:
2	chr9:100411786..100413328-chr9:100457588..100459137,2	MCF-7	breast:
3	chr9:100411427..100413125-chr9:100414736..100416807,2	K562	blood:
4	chr9:100412566..100414114-chr9:100445539..100447907,2	K562	blood:
5	chr9:100401716..100404394-chr9:100411444..100413057,2	MCF-7	breast:
6	chr9:100394359..100398001-chr9:100409634..100412767,6	MCF-7	breast:
7	chr9:100410804..100412740-chr9:100422951..100425321,2	K562	blood:
8	chr9:100394492..100397879-chr9:100408415..100414549,11	MCF-7	breast:
9	chr9:100410274..100416448-chr9:100436904..100442072,6	K562	blood:
10	chr9:100412483..100414670-chr9:100416254..100417755,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000136936	Chromatin interaction
ENSG00000136925	Chromatin interaction
ENSG00000136937	Chromatin interaction

Extended variants
information (count: 140 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:137)

rs_ID	r²[population]
rs1034098	0.82[AFR][1000 genomes]
rs1034100	0.82[YRI][hapmap]
rs1116208	0.82[AFR][1000 genomes]
rs14066	0.82[AFR][1000 genomes]
rs1411344	0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs1543636	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs16923041	0.83[YRI][hapmap];0.86[AFR][1000 genomes]
rs16923112	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs1813875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1928641	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs1928642	0.81[YRI][hapmap];0.82[AFR][1000 genomes]
rs2282066	0.81[AFR][1000 genomes]
rs2282067	0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs2297155	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs2297156	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs2297158	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs2297159	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs2297160	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs2401635	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs28403589	0.82[YRI][hapmap];0.80[AFR][1000 genomes]
rs3176623	0.81[AFR][1000 genomes]
rs3176624	0.81[AFR][1000 genomes]
rs3176626	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176628	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176629	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176635	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs3176637	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176638	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176644	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176651	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176657	0.92[AFR][1000 genomes]
rs3176659	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176668	0.82[YRI][hapmap]
rs3176669	0.81[AFR][1000 genomes]
rs3176670	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176675	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176682	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176685	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176687	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs3176688	0.83[YRI][hapmap]
rs3176694	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176706	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs3176708	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176711	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs3176712	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs3176714	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176720	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176723	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176724	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176726	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176735	0.81[AFR][1000 genomes]
rs3176736	0.81[AFR][1000 genomes]
rs3176740	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs3176744	0.82[YRI][hapmap]
rs3176746	0.81[AFR][1000 genomes]
rs3176747	0.81[AFR][1000 genomes]
rs3750370	0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs3802472	0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs3802473	0.81[YRI][hapmap];0.82[AFR][1000 genomes]
rs3802474	0.83[YRI][hapmap];0.84[AFR][1000 genomes]
rs41274252	0.82[AFR][1000 genomes]
rs55966848	0.82[AFR][1000 genomes]
rs56060429	0.82[AFR][1000 genomes]
rs57598118	0.81[AFR][1000 genomes]
rs58146508	0.82[AFR][1000 genomes]
rs58387091	0.82[AFR][1000 genomes]
rs58637778	0.83[AFR][1000 genomes]
rs58878935	0.84[AFR][1000 genomes]
rs59478543	0.80[AFR][1000 genomes]
rs59662386	0.86[AFR][1000 genomes]
rs59775587	0.81[AFR][1000 genomes]
rs59791764	0.82[AFR][1000 genomes]
rs59992945	0.82[AFR][1000 genomes]
rs60026475	0.81[AFR][1000 genomes]
rs60028882	0.82[AFR][1000 genomes]
rs60055057	0.86[AFR][1000 genomes]
rs60463150	0.81[AFR][1000 genomes]
rs60596698	0.82[AFR][1000 genomes]
rs60653177	0.82[AFR][1000 genomes]
rs60821994	0.81[AFR][1000 genomes]
rs61208411	0.81[AFR][1000 genomes]
rs61221847	0.86[AFR][1000 genomes]
rs61276200	0.82[AFR][1000 genomes]
rs61445476	0.82[AFR][1000 genomes]
rs61739366	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6478304	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs6478305	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7018546	0.82[AFR][1000 genomes]
rs7021377	0.94[AFR][1000 genomes]
rs7025403	0.81[YRI][hapmap];0.82[AFR][1000 genomes]
rs7036604	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs7045160	0.82[YRI][hapmap]
rs7049183	0.82[AFR][1000 genomes]
rs7341850	0.82[YRI][hapmap];0.86[AFR][1000 genomes]
rs73498323	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73498324	0.84[AFR][1000 genomes]
rs73498329	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73498332	0.86[AFR][1000 genomes]
rs73498338	0.86[AFR][1000 genomes]
rs73498347	0.86[AFR][1000 genomes]
rs73498348	0.86[AFR][1000 genomes]
rs73498355	0.86[AFR][1000 genomes]
rs73498358	0.86[AFR][1000 genomes]
rs73498359	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73498362	0.86[AFR][1000 genomes]
rs73498365	0.94[AFR][1000 genomes]
rs73498377	0.81[AFR][1000 genomes]
rs73498380	0.81[AFR][1000 genomes]
rs73498381	0.81[AFR][1000 genomes]
rs73500307	0.93[AFR][1000 genomes]
rs73500321	0.94[AFR][1000 genomes]
rs73500325	0.81[AFR][1000 genomes]
rs73500328	0.81[AFR][1000 genomes]
rs73500392	0.93[AFR][1000 genomes]
rs73500393	0.81[AFR][1000 genomes]
rs73500395	0.81[AFR][1000 genomes]
rs73500396	0.81[AFR][1000 genomes]
rs73500397	0.81[AFR][1000 genomes]
rs73500398	0.81[AFR][1000 genomes]
rs73500400	0.81[AFR][1000 genomes]
rs73502208	0.92[AFR][1000 genomes]
rs73502210	0.92[AFR][1000 genomes]
rs73551090	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73552520	0.81[AFR][1000 genomes]
rs73554631	0.80[AFR][1000 genomes]
rs73554641	0.82[AFR][1000 genomes]
rs73554646	0.82[AFR][1000 genomes]
rs73554650	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73554652	0.82[AFR][1000 genomes]
rs7850986	0.81[AFR][1000 genomes]
rs7856316	0.82[AFR][1000 genomes]
rs7857174	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7859684	0.82[AFR][1000 genomes]
rs7859979	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7866961	0.83[YRI][hapmap];0.86[AFR][1000 genomes]
rs7867046	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs7869683	0.82[YRI][hapmap];0.86[AFR][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	nsv1039240	chr9:100292680-100415269	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv540179	chr9:100292680-100415269	Genic enhancers Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100398000-100418600	Weak transcription	Pancreas	Pancrea
2	chr9:100399200-100421400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:100399400-100414600	Weak transcription	Right Atrium	heart
4	chr9:100399400-100415600	Weak transcription	Small Intestine	intestine
5	chr9:100399600-100426800	Weak transcription	Stomach Mucosa	stomach
6	chr9:100400800-100451600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:100401200-100429000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
8	chr9:100401200-100456000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr9:100402400-100422400	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr9:100402400-100425000	Strong transcription	Primary B cells from cord blood	blood
11	chr9:100402400-100439600	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:100402400-100451400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr9:100402400-100455600	Strong transcription	Dnd41	blood
14	chr9:100402600-100456000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr9:100402600-100456200	Strong transcription	Primary B cells from peripheral blood	blood
16	chr9:100402800-100415200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr9:100402800-100429000	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr9:100402800-100454200	Strong transcription	Fetal Thymus	thymus
19	chr9:100402800-100456000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:100403000-100413600	Weak transcription	Fetal Heart	heart
21	chr9:100403000-100413800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:100403000-100422600	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr9:100403000-100428400	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr9:100403000-100439400	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr9:100403000-100439800	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chr9:100403000-100449400	Strong transcription	HSMM	muscle
27	chr9:100403000-100450400	Strong transcription	Duodenum Mucosa	Duodenum
28	chr9:100403000-100454400	Strong transcription	Placenta	Placenta
29	chr9:100403000-100454600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr9:100403200-100454400	Strong transcription	Rectal Mucosa Donor 31	rectum
31	chr9:100403200-100455000	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr9:100403400-100413200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr9:100403400-100413400	Strong transcription	Primary hematopoietic stem cells	blood
34	chr9:100403400-100434400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr9:100403400-100439600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
36	chr9:100403400-100444200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr9:100403600-100453800	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr9:100403800-100413800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr9:100403800-100436200	Strong transcription	Adipose Nuclei	Adipose
40	chr9:100403800-100439000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
41	chr9:100404000-100413600	Strong transcription	Osteobl	bone
42	chr9:100404000-100435800	Strong transcription	A549	lung
43	chr9:100404000-100449200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr9:100404400-100422200	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chr9:100404800-100455400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr9:100405000-100437800	Strong transcription	GM12878-XiMat	blood
47	chr9:100405400-100414000	Strong transcription	NH-A	brain
48	chr9:100405800-100438600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr9:100406200-100414400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr9:100406200-100424400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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