Variant report

Variant	rs34573746
Chromosome Location	chr15:74503711-74503712
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:74492912..74495035-chr15:74502031..74504562,2	MCF-7	breast:
2	chr15:74494443..74497074-chr15:74501503..74504271,2	K562	blood:
3	chr15:74495538..74499115-chr15:74503082..74506667,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137868	Chromatin interaction
ENSG00000259264	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11630317	0.85[EUR][1000 genomes]
rs11630924	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11631509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11631944	0.87[EUR][1000 genomes]
rs11633687	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11639090	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11639369	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11854957	0.87[EUR][1000 genomes]
rs11857410	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12899173	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12905521	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12907503	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12911581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12912258	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12912578	0.88[EUR][1000 genomes]
rs12913041	0.88[EUR][1000 genomes]
rs12915891	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13259	0.88[EUR][1000 genomes]
rs2062309	0.85[EUR][1000 genomes]
rs2415169	0.87[EUR][1000 genomes]
rs2899824	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs34004794	0.81[AMR][1000 genomes]
rs34147822	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34234753	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34591452	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34868798	0.87[EUR][1000 genomes]
rs34985083	0.81[AMR][1000 genomes]
rs35036456	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35255788	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35462746	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35661273	0.87[EUR][1000 genomes]
rs35917667	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3848160	0.88[EUR][1000 genomes]
rs3848161	0.88[EUR][1000 genomes]
rs3888004	0.88[EUR][1000 genomes]
rs409856	0.88[EUR][1000 genomes]
rs62003660	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62003661	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62005707	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs62005709	0.88[EUR][1000 genomes]
rs62005710	0.88[EUR][1000 genomes]
rs62005711	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71399778	0.88[EUR][1000 genomes]
rs72747610	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs733163	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8037531	0.86[EUR][1000 genomes]
rs923118	0.87[EUR][1000 genomes]
rs9630417	0.85[EUR][1000 genomes]
rs971755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs971756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs971757	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]

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	nsv833053	chr15:74360156-74555140	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv904345	chr15:74458181-74526596	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv904346	chr15:74458181-74548773	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv904347	chr15:74462629-74537101	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv904348	chr15:74462629-74542686	Genic enhancers Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv471253	chr15:74489207-74545148	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv904349	chr15:74500105-74542686	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv904350	chr15:74500105-74548773	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74489200-74509600	Weak transcription	Gastric	stomach
2	chr15:74497000-74505800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:74498400-74506000	Weak transcription	Left Ventricle	heart
4	chr15:74499800-74504400	Enhancers	GM12878-XiMat	blood
5	chr15:74500200-74506000	Weak transcription	Brain Germinal Matrix	brain
6	chr15:74500600-74506000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:74500800-74503800	Enhancers	H1 Cell Line	embryonic stem cell
8	chr15:74501200-74504400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:74501200-74507400	Weak transcription	Spleen	Spleen
10	chr15:74501400-74503800	Enhancers	Fetal Brain Male	brain
11	chr15:74501800-74505800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr15:74501800-74507200	Weak transcription	HSMM	muscle
13	chr15:74502000-74504600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr15:74502000-74506000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:74502200-74503800	Enhancers	Hela-S3	cervix
16	chr15:74502200-74504200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr15:74502200-74506200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr15:74502200-74508800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:74502400-74504000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr15:74502400-74504400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:74502400-74504400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr15:74502400-74507400	Weak transcription	Placenta	Placenta
23	chr15:74502600-74504400	Weak transcription	Fetal Muscle Trunk	muscle
24	chr15:74502800-74504200	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr15:74503000-74504000	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr15:74503000-74504400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr15:74503000-74504400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr15:74503000-74504600	Weak transcription	A549	lung
29	chr15:74503000-74505800	Weak transcription	Fetal Lung	lung
30	chr15:74503000-74506000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr15:74503000-74506600	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr15:74503000-74507000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:74503000-74507200	Weak transcription	Fetal Kidney	kidney
34	chr15:74503200-74504000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:74503200-74504200	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr15:74503200-74504200	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr15:74503200-74504200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:74503200-74504200	Weak transcription	HepG2	liver
39	chr15:74503200-74504400	Weak transcription	Fetal Thymus	thymus
40	chr15:74503200-74505600	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr15:74503200-74506000	Weak transcription	Fetal Stomach	stomach
42	chr15:74503200-74506200	Weak transcription	Right Atrium	heart
43	chr15:74503200-74507000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr15:74503200-74507000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:74503400-74503800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr15:74503400-74503800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr15:74503400-74506000	Weak transcription	Fetal Brain Female	brain
48	chr15:74503400-74506400	Weak transcription	NH-A	brain
49	chr15:74503600-74504200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr15:74503600-74506000	Weak transcription	Fetal Heart	heart

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