Variant report

Variant	rs677933
Chromosome Location	chr15:59151916-59151917
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:59150203..59152122-chr4:10117805..10120287,2	MCF-7	breast:
2	chr15:59145262..59147109-chr15:59151611..59154178,2	K562	blood:
3	chr15:59150365..59151946-chr15:59158006..59159550,2	K562	blood:

Variant related genes	Relation type
ENSG00000071127	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10518991	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10518992	0.95[CEU][hapmap];0.82[JPT][hapmap];0.93[EUR][1000 genomes]
rs1078001	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1092172	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11071401	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11630160	0.95[CEU][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11631540	0.85[CEU][hapmap]
rs11636723	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs11637077	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs11856640	0.95[CEU][hapmap]
rs11858989	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs12438961	0.81[EUR][1000 genomes]
rs12440904	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12443436	0.86[EUR][1000 genomes]
rs12595482	0.90[CEU][hapmap];0.90[EUR][1000 genomes]
rs12910580	0.84[CEU][hapmap]
rs12914723	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs17302038	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17302045	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs173214	0.95[CEU][hapmap];0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2013117	0.84[EUR][1000 genomes]
rs2279719	0.86[EUR][1000 genomes]
rs28473013	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28529423	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28538484	0.93[EUR][1000 genomes]
rs28641638	0.95[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28709922	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3145	0.82[JPT][hapmap]
rs35477914	0.93[EUR][1000 genomes]
rs431414	1.00[CEU][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs4328375	0.90[CEU][hapmap]
rs592407	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs604057	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs637918	0.95[EUR][1000 genomes]
rs694918	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7173317	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs793571	0.82[ASN][1000 genomes]
rs8029301	0.90[CEU][hapmap]
rs8035628	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs813219	0.98[EUR][1000 genomes]
rs813220	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv1826703	chr15:59005922-59213678	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	esv1798487	chr15:59027139-59213678	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
5	nsv1035640	chr15:59105360-59190930	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv904270	chr15:59140329-59238415	Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
7	nsv974723	chr15:59150255-59153172	Weak transcription Strong transcription	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59067000-59157800	Weak transcription	Hela-S3	cervix
2	chr15:59077800-59153600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr15:59090200-59156600	Weak transcription	Small Intestine	intestine
4	chr15:59095200-59156800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr15:59103800-59157000	Weak transcription	Psoas Muscle	Psoas
6	chr15:59104000-59157000	Weak transcription	Esophagus	oesophagus
7	chr15:59104000-59157200	Weak transcription	NHLF	lung
8	chr15:59106000-59156800	Weak transcription	Lung	lung
9	chr15:59106200-59156800	Weak transcription	Ovary	ovary
10	chr15:59106200-59157000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:59106600-59157000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr15:59106800-59156400	Weak transcription	Fetal Kidney	kidney
13	chr15:59111800-59159600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr15:59120000-59169000	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr15:59122000-59156400	Weak transcription	Fetal Heart	heart
16	chr15:59126000-59156600	Weak transcription	Right Ventricle	heart
17	chr15:59126200-59157000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr15:59127200-59156600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:59137200-59156800	Weak transcription	Spleen	Spleen
20	chr15:59138200-59156400	Weak transcription	Brain Substantia Nigra	brain
21	chr15:59138200-59156800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr15:59138400-59155800	Weak transcription	Fetal Brain Male	brain
23	chr15:59140000-59155000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr15:59140600-59153600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr15:59140600-59154200	Weak transcription	Primary B cells from peripheral blood	blood
26	chr15:59140600-59154200	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr15:59140600-59154200	Weak transcription	Brain Angular Gyrus	brain
28	chr15:59140600-59156400	Weak transcription	Liver	Liver
29	chr15:59140600-59156800	Weak transcription	Primary B cells from cord blood	blood
30	chr15:59140600-59156800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr15:59140600-59156800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr15:59140800-59154200	Weak transcription	NHEK	skin
33	chr15:59140800-59156800	Weak transcription	Fetal Lung	lung
34	chr15:59141600-59154200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr15:59141800-59156800	Weak transcription	Fetal Muscle Trunk	muscle
36	chr15:59142600-59156800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr15:59142800-59157000	Weak transcription	Brain Germinal Matrix	brain
38	chr15:59143000-59154200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr15:59143200-59156400	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr15:59144200-59156400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr15:59144400-59156400	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:59144400-59156600	Weak transcription	Fetal Muscle Leg	muscle
43	chr15:59144400-59156800	Weak transcription	Thymus	Thymus
44	chr15:59144400-59157000	Weak transcription	Aorta	Aorta
45	chr15:59144400-59157000	Weak transcription	Fetal Brain Female	brain
46	chr15:59144400-59157000	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:59144800-59157000	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr15:59145000-59166600	Weak transcription	HSMMtube	muscle
49	chr15:59145600-59154400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr15:59146600-59154200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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