Variant report

Variant	rs7342575
Chromosome Location	chr15:52076222-52076223
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52071058..52073972-chr15:52076108..52078504,2	MCF-7	breast:
2	chr15:52041956..52043686-chr15:52074164..52076601,2	MCF-7	breast:
3	chr15:52073675..52076293-chr15:52262420..52265302,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128872	Chromatin interaction
ENSG00000166477	Chromatin interaction
ENSG00000140280	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1350173	0.85[EUR][1000 genomes]
rs16953082	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964486	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964488	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs16964505	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964506	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964507	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964508	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964510	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964518	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964528	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16964532	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964555	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs16964561	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs16964579	0.83[EUR][1000 genomes]
rs16964585	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs16964596	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs17705373	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2414115	1.00[CEU][hapmap]
rs2570232	1.00[CEU][hapmap]
rs2899478	1.00[CEU][hapmap]
rs3751595	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs3794529	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4775971	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs56221158	0.90[EUR][1000 genomes]
rs60398357	0.85[EUR][1000 genomes]
rs7165594	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs7166954	0.93[EUR][1000 genomes]
rs7167759	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs7174616	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7175121	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7179971	0.93[EUR][1000 genomes]
rs7180093	0.93[EUR][1000 genomes]
rs73405349	0.85[EUR][1000 genomes]
rs73405355	0.85[EUR][1000 genomes]
rs73405356	0.85[EUR][1000 genomes]
rs73405364	0.87[EUR][1000 genomes]
rs73405388	0.85[EUR][1000 genomes]
rs74015721	0.85[EUR][1000 genomes]
rs74015757	0.98[EUR][1000 genomes]
rs74015761	0.98[EUR][1000 genomes]
rs7496198	0.81[EUR][1000 genomes]
rs8036648	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv3411789	chr15:52052789-52087519	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52051200-52077600	Weak transcription	Psoas Muscle	Psoas
2	chr15:52052200-52101800	Weak transcription	Colonic Mucosa	Colon
3	chr15:52052400-52078400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr15:52052600-52106600	Weak transcription	HSMM	muscle
5	chr15:52053400-52090600	Weak transcription	Pancreas	Pancrea
6	chr15:52060200-52103400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr15:52060400-52079200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr15:52060400-52085400	Weak transcription	Fetal Lung	lung
9	chr15:52060600-52087400	Weak transcription	Gastric	stomach
10	chr15:52060600-52088400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr15:52060600-52091000	Weak transcription	Right Ventricle	heart
12	chr15:52060800-52101200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr15:52060800-52102600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr15:52060800-52105400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr15:52061600-52085400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:52061600-52112000	Weak transcription	NHLF	lung
17	chr15:52061800-52077200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr15:52061800-52098600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:52064400-52090400	Weak transcription	Left Ventricle	heart
20	chr15:52064600-52078400	Weak transcription	Fetal Muscle Leg	muscle
21	chr15:52065600-52090600	Weak transcription	Spleen	Spleen
22	chr15:52065800-52091000	Weak transcription	Esophagus	oesophagus
23	chr15:52067200-52090600	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr15:52067400-52078400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr15:52067400-52079800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr15:52067600-52090600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:52067800-52089000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr15:52068400-52078200	Weak transcription	Thymus	Thymus
29	chr15:52068400-52079200	Weak transcription	Fetal Stomach	stomach
30	chr15:52069200-52078400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr15:52069200-52091000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:52069400-52076800	Weak transcription	Liver	Liver
33	chr15:52069400-52078800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr15:52069400-52085200	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr15:52071000-52080400	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr15:52071200-52077600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
37	chr15:52071200-52079000	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr15:52071400-52080200	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr15:52072000-52079400	Strong transcription	Fetal Brain Female	brain
40	chr15:52072800-52077000	Strong transcription	Brain Angular Gyrus	brain
41	chr15:52072800-52080600	Strong transcription	Primary B cells from peripheral blood	blood
42	chr15:52073000-52079400	Strong transcription	Brain Hippocampus Middle	brain
43	chr15:52073000-52080400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr15:52073200-52076600	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr15:52073200-52076600	Strong transcription	Stomach Smooth Muscle	stomach
46	chr15:52073200-52076800	Strong transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:52073200-52076800	Strong transcription	Brain Substantia Nigra	brain
48	chr15:52073400-52076600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr15:52073400-52077400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr15:52073400-52085400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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