Variant report

Variant	rs2925740
Chromosome Location	chr1:150969992-150969993
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:150937219..150939370-chr1:150968361..150970746,2	MCF-7	breast:
2	chr1:150944409..150948293-chr1:150968315..150970666,3	MCF-7	breast:
3	chr1:150951645..150956254-chr1:150963775..150970753,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143418	Chromatin interaction
ENSG00000231073	Chromatin interaction
ENSG00000259357	Chromatin interaction
ENSG00000143412	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10305699	0.81[EUR][1000 genomes]
rs11204755	1.00[EUR][1000 genomes]
rs12068631	0.81[EUR][1000 genomes]
rs12073630	1.00[EUR][1000 genomes]
rs12074446	1.00[EUR][1000 genomes]
rs12075317	1.00[EUR][1000 genomes]
rs12078033	1.00[EUR][1000 genomes]
rs12079970	0.98[EUR][1000 genomes]
rs12096801	0.98[EUR][1000 genomes]
rs1673161	0.89[EUR][1000 genomes]
rs28527376	0.98[EUR][1000 genomes]
rs3002292	0.87[EUR][1000 genomes]
rs41310885	0.98[EUR][1000 genomes]
rs4418603	0.89[EUR][1000 genomes]
rs61819176	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6695311	0.81[EUR][1000 genomes]
rs7526955	0.89[EUR][1000 genomes]
rs771200	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9661107	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001897	chr1:150743271-151241600	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv535158	chr1:150743271-151241600	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv1008496	chr1:150845827-150970656	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
4	nsv522317	chr1:150933723-150974162	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
5	nsv522840	chr1:150933723-151347746	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
6	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:150955400-150970400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:150955400-150978800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:150961800-150978200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr1:150965800-150970200	Weak transcription	HMEC	breast
5	chr1:150966600-150971400	Strong transcription	Primary neutrophils fromperipheralblood	blood
6	chr1:150967000-150971400	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr1:150967400-150973600	Strong transcription	Primary T cells from cord blood	blood
8	chr1:150967600-150970000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr1:150967600-150971200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr1:150967600-150971400	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr1:150967600-150973600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr1:150967600-150974200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr1:150967600-150975200	Strong transcription	Fetal Intestine Small	intestine
14	chr1:150967600-150975600	Strong transcription	Fetal Stomach	stomach
15	chr1:150967600-150978000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr1:150968000-150975200	Weak transcription	Small Intestine	intestine
17	chr1:150968200-150977400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr1:150968400-150970400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:150968400-150971200	Weak transcription	HSMM	muscle
20	chr1:150968400-150971400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr1:150968400-150971400	Weak transcription	HSMMtube	muscle
22	chr1:150968400-150973400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr1:150968400-150974200	Strong transcription	Pancreas	Pancrea
24	chr1:150968400-150974200	Weak transcription	Right Atrium	heart
25	chr1:150968400-150974200	Weak transcription	Thymus	Thymus
26	chr1:150968400-150975200	Weak transcription	Hela-S3	cervix
27	chr1:150968400-150978000	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr1:150968400-150978000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr1:150968400-150978000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr1:150968600-150970400	Weak transcription	Stomach Mucosa	stomach
31	chr1:150968600-150970400	Weak transcription	NHEK	skin
32	chr1:150968600-150971200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr1:150968600-150971200	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr1:150968600-150971200	Weak transcription	HepG2	liver
35	chr1:150968600-150971200	Weak transcription	K562	blood
36	chr1:150968600-150971400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr1:150968600-150971400	Weak transcription	HUVEC	blood vessel
38	chr1:150968600-150971600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr1:150968600-150971600	Weak transcription	Fetal Kidney	kidney
40	chr1:150968600-150971600	Weak transcription	Fetal Thymus	thymus
41	chr1:150968600-150972000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr1:150968600-150974600	Strong transcription	Liver	Liver
43	chr1:150968600-150975000	Weak transcription	Dnd41	blood
44	chr1:150968600-150975400	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr1:150968600-150975600	Weak transcription	Psoas Muscle	Psoas
46	chr1:150968600-150975600	Weak transcription	GM12878-XiMat	blood
47	chr1:150968600-150977400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr1:150968600-150977400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr1:150968600-150977400	Weak transcription	NHDF-Ad	bronchial
50	chr1:150968600-150978000	Weak transcription	A549	lung

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