Variant report

Variant	rs2662609
Chromosome Location	chr5:57705474-57705475
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:57704438..57706069-chr5:57754618..57757293,2	MCF-7	breast:
2	chr5:57704818..57707042-chr5:57711900..57714424,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10472061	0.81[YRI][hapmap]
rs1508920	1.00[ASN][1000 genomes]
rs151918	0.95[ASN][1000 genomes]
rs181748	0.95[ASN][1000 genomes]
rs244699	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs244701	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs244702	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs245458	0.98[ASN][1000 genomes]
rs245459	0.95[ASN][1000 genomes]
rs2652497	0.97[ASN][1000 genomes]
rs26970	0.89[ASN][1000 genomes]
rs26971	0.92[ASN][1000 genomes]
rs26972	0.92[ASN][1000 genomes]
rs26973	0.92[ASN][1000 genomes]
rs26974	0.95[ASN][1000 genomes]
rs26975	0.95[ASN][1000 genomes]
rs26977	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs27568	0.90[ASN][1000 genomes]
rs27724	0.95[ASN][1000 genomes]
rs27937	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28017	0.95[ASN][1000 genomes]
rs32629	0.90[ASN][1000 genomes]
rs36644	0.91[EUR][1000 genomes]
rs36646	0.83[ASN][1000 genomes]
rs36647	0.85[ASN][1000 genomes]
rs375523	0.98[ASN][1000 genomes]
rs378828	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs393809	0.85[ASN][1000 genomes]
rs40169	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs40622	0.81[ASN][1000 genomes]
rs420498	0.85[ASN][1000 genomes]
rs42317	0.85[ASN][1000 genomes]
rs435805	0.92[ASN][1000 genomes]
rs445309	0.95[ASN][1000 genomes]
rs696190	1.00[ASN][1000 genomes]
rs696191	1.00[ASN][1000 genomes]
rs697086	0.98[ASN][1000 genomes]
rs697136	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs697137	0.98[ASN][1000 genomes]
rs702596	1.00[ASN][1000 genomes]
rs702597	1.00[ASN][1000 genomes]
rs702598	0.95[ASN][1000 genomes]
rs834934	1.00[ASN][1000 genomes]
rs834936	1.00[ASN][1000 genomes]
rs835232	0.85[ASN][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	nsv508358	chr5:57673230-57709684	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1028460	chr5:57691003-57719435	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57699600-57708200	Enhancers	HMEC	breast
2	chr5:57700000-57708000	Enhancers	NHEK	skin
3	chr5:57701000-57705800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr5:57701400-57706400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr5:57702400-57705600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr5:57702400-57706600	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr5:57703600-57705800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:57703600-57706800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:57703600-57706800	Weak transcription	Hela-S3	cervix
10	chr5:57703600-57706800	Weak transcription	HSMMtube	muscle
11	chr5:57703800-57706000	Weak transcription	Osteobl	bone
12	chr5:57703800-57706800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr5:57703800-57708200	Enhancers	A549	lung
14	chr5:57704000-57706000	Weak transcription	NH-A	brain
15	chr5:57704400-57705800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr5:57704400-57706000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr5:57704600-57705600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr5:57704600-57705800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr5:57704600-57705800	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr5:57704600-57705800	Weak transcription	HSMM	muscle
21	chr5:57704600-57706200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr5:57704600-57707000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr5:57704600-57707600	Weak transcription	Esophagus	oesophagus
24	chr5:57704800-57706000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr5:57705000-57706600	Enhancers	H9 Cell Line	embryonic stem cell
26	chr5:57705200-57705800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr5:57705200-57706200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr5:57705400-57705800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr5:57705400-57707400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr5:57705400-57708200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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