Variant report

Variant	rs7723361
Chromosome Location	chr5:49974032-49974033
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	chr5:49973996..49976524-chr5:49985360..49987243,2	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10039639	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10434558	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs10471956	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs10755235	1.00[CEU][hapmap]
rs10940497	0.83[CEU][hapmap]
rs11750771	0.91[CEU][hapmap]
rs12188262	0.83[CEU][hapmap]
rs12188654	0.91[CEU][hapmap]
rs12518710	1.00[JPT][hapmap]
rs13164951	0.91[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1375127	0.83[CEU][hapmap];0.85[YRI][hapmap]
rs154137	0.83[CEU][hapmap]
rs154138	0.91[CEU][hapmap]
rs157970	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs16884018	0.83[CEU][hapmap]
rs169497	0.83[CEU][hapmap]
rs171555	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs182230	0.83[CEU][hapmap];0.83[YRI][hapmap]
rs1988613	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs2548581	0.83[CEU][hapmap]
rs256340	0.91[CEU][hapmap]
rs256341	0.82[CEU][hapmap];0.82[YRI][hapmap]
rs26065	0.83[CEU][hapmap]
rs26068	0.91[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs26069	0.83[CEU][hapmap];0.82[YRI][hapmap]
rs26071	0.83[CEU][hapmap]
rs2697662	0.83[CEU][hapmap];1.00[YRI][hapmap]
rs27245	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs27251	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs27467	0.83[CEU][hapmap]
rs27468	0.91[CEU][hapmap];0.89[YRI][hapmap]
rs27469	0.83[CEU][hapmap]
rs27627	0.91[CEU][hapmap]
rs282550	0.83[CEU][hapmap];0.83[YRI][hapmap]
rs282552	0.83[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs282553	0.91[CEU][hapmap]
rs282559	0.90[CEU][hapmap];1.00[JPT][hapmap]
rs282561	0.91[CEU][hapmap];0.90[YRI][hapmap]
rs32404	0.86[CEU][hapmap]
rs32425	0.83[CEU][hapmap]
rs39613	0.83[CEU][hapmap];0.83[YRI][hapmap]
rs4029420	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs42284	0.91[CEU][hapmap]
rs4865628	0.83[CEU][hapmap]
rs4865974	1.00[JPT][hapmap]
rs4866001	1.00[JPT][hapmap]
rs578198	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6450359	0.83[CEU][hapmap];1.00[YRI][hapmap]
rs6872496	0.91[CEU][hapmap];0.90[YRI][hapmap]
rs6886872	1.00[JPT][hapmap]
rs6890519	0.91[CEU][hapmap]
rs6890869	0.83[CEU][hapmap]
rs7711839	0.90[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs895801	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs921210	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016583	chr5:49455624-50116720	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1023140	chr5:49455624-50121623	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv918220	chr5:49584188-50111282	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv931010	chr5:49584189-50118254	Genic enhancers Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv523212	chr5:49597497-50058043	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	esv2757995	chr5:49748352-50058182	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	esv2759342	chr5:49748352-50058182	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	esv16870	chr5:49885849-49989415	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv818352	chr5:49958221-50017724	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv462159	chr5:49960673-50229851	Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv598108	chr5:49960673-50229851	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv968910	chr5:49961360-49980983	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	nsv980791	chr5:49968246-49975820	Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv965012	chr5:49973410-49975820	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:49964400-49975400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr5:49964400-49977400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:49964400-49982400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr5:49964400-49983400	Weak transcription	Esophagus	oesophagus
5	chr5:49964800-49976200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr5:49964800-49976600	Weak transcription	NHDF-Ad	bronchial
7	chr5:49964800-49977600	Weak transcription	Brain Anterior Caudate	brain
8	chr5:49964800-49977800	Weak transcription	Fetal Brain Male	brain
9	chr5:49965600-49976400	Weak transcription	HMEC	breast
10	chr5:49965800-49976000	Weak transcription	Fetal Lung	lung
11	chr5:49965800-49976000	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr5:49965800-49982000	Weak transcription	Duodenum Mucosa	Duodenum
13	chr5:49965800-49983600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr5:49966000-49975400	Weak transcription	NHEK	skin
15	chr5:49968400-49974600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr5:49968400-49977600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr5:49968600-49976000	Weak transcription	Fetal Stomach	stomach
18	chr5:49968800-49974600	Weak transcription	Spleen	Spleen
19	chr5:49968800-49975600	Weak transcription	Primary B cells from cord blood	blood
20	chr5:49968800-49990400	Weak transcription	Small Intestine	intestine
21	chr5:49969000-49980400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr5:49969400-49974400	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr5:49970200-49974200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr5:49970200-49974400	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr5:49970200-49977600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr5:49970400-49976200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr5:49970400-49976200	Weak transcription	Osteobl	bone
28	chr5:49970400-49977800	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr5:49970400-49979800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr5:49970600-49974200	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr5:49970600-49982600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr5:49970600-49982600	Weak transcription	Aorta	Aorta
33	chr5:49970800-49976400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr5:49970800-49978000	Enhancers	Primary T helper naive cells from peripheral blood	blood
35	chr5:49970800-49979800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr5:49971200-49975800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr5:49971400-49975000	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr5:49971400-49980200	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr5:49971600-49975400	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr5:49971600-49978600	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr5:49971600-49982000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr5:49972000-49978200	Enhancers	Primary T cells from cord blood	blood
43	chr5:49972200-49975600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr5:49972600-49974600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr5:49972600-49980600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr5:49973000-49974600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr5:49973200-49976600	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr5:49973200-49976800	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr5:49973200-49979200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
50	chr5:49973400-49975000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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