Variant report

Variant	rs17090773
Chromosome Location	chr1:71530314-71530315
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:71528704..71533041-chr1:71544796..71547832,3	MCF-7	breast:
2	chr1:70685786..70687454-chr1:71528741..71531552,2	K562	blood:
3	chr1:71529510..71531463-chr1:71539186..71540822,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228988	Chromatin interaction
ENSG00000229956	Chromatin interaction
ENSG00000132485	Chromatin interaction
ENSG00000116754	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs17090765	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17090819	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17090951	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17090963	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2066372	0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs2421872	0.87[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv546472	chr1:71432984-71541003	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	555 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:71513600-71533600	Weak transcription	Lung	lung
2	chr1:71514000-71530600	Weak transcription	Ovary	ovary
3	chr1:71514000-71533600	Weak transcription	Pancreas	Pancrea
4	chr1:71514000-71533600	Weak transcription	Right Ventricle	heart
5	chr1:71514200-71533600	Weak transcription	Spleen	Spleen
6	chr1:71515800-71541000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr1:71519200-71533400	Weak transcription	Fetal Intestine Small	intestine
8	chr1:71520000-71536800	Weak transcription	Aorta	Aorta
9	chr1:71520400-71533600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr1:71520400-71534600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:71520600-71533600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr1:71520600-71544600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr1:71521200-71533600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr1:71521400-71530400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:71521400-71544200	Strong transcription	Adipose Nuclei	Adipose
16	chr1:71521600-71536800	Weak transcription	Stomach Mucosa	stomach
17	chr1:71521800-71530400	Weak transcription	Small Intestine	intestine
18	chr1:71521800-71544600	Strong transcription	HSMM	muscle
19	chr1:71522000-71534400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr1:71522000-71543800	Strong transcription	Primary B cells from cord blood	blood
21	chr1:71522000-71544200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr1:71522000-71544200	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr1:71522000-71544200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr1:71522000-71544400	Strong transcription	HMEC	breast
25	chr1:71522200-71532600	Strong transcription	GM12878-XiMat	blood
26	chr1:71522200-71534000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr1:71522200-71540800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr1:71522200-71544200	Strong transcription	Muscle Satellite Cultured Cells	--
29	chr1:71522200-71544600	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr1:71522400-71544200	Strong transcription	Liver	Liver
31	chr1:71522600-71532800	Strong transcription	Primary T cells from cord blood	blood
32	chr1:71522600-71533400	Weak transcription	Fetal Stomach	stomach
33	chr1:71522600-71544200	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr1:71522600-71544200	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr1:71522600-71544400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
36	chr1:71522600-71544400	Strong transcription	NH-A	brain
37	chr1:71522800-71540400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr1:71522800-71544400	Strong transcription	Fetal Thymus	thymus
39	chr1:71522800-71544600	Strong transcription	HUES6 Cell Line	embryonic stem cell
40	chr1:71522800-71544600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr1:71523000-71531600	Strong transcription	A549	lung
42	chr1:71523000-71543800	Strong transcription	Duodenum Mucosa	Duodenum
43	chr1:71523000-71544400	Strong transcription	Osteobl	bone
44	chr1:71523000-71544600	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr1:71523000-71544600	Strong transcription	Placenta	Placenta
46	chr1:71523200-71540600	Strong transcription	Dnd41	blood
47	chr1:71523200-71542800	Strong transcription	K562	blood
48	chr1:71523200-71544200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr1:71523200-71544400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr1:71523400-71537200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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