Variant report

Variant	rs7340745
Chromosome Location	chr3:86224663-86224664
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:19140307..19141117-chr3:86224171..86225016,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11927233	1.00[CEU][hapmap]
rs17026450	0.89[EUR][1000 genomes]
rs5014408	1.00[CEU][hapmap];0.85[TSI][hapmap]
rs56952942	1.00[ASN][1000 genomes]
rs57727391	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59867513	0.97[ASN][1000 genomes]
rs60044734	0.97[ASN][1000 genomes]
rs61043144	0.97[ASN][1000 genomes]
rs7340539	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7649961	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9310002	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9845174	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857404	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882636	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882827	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv877113	chr3:86205676-86298087	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86222600-86225200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:86222600-86225600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:86222600-86226000	Enhancers	H1 Cell Line	embryonic stem cell
4	chr3:86222600-86226000	Enhancers	H9 Cell Line	embryonic stem cell
5	chr3:86222600-86226000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr3:86222600-86226400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:86223200-86226200	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:86223400-86226400	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr3:86223600-86226200	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr3:86223800-86225000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr3:86224000-86225400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:86224000-86225400	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr3:86224200-86225200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:86224200-86225200	Enhancers	Fetal Stomach	stomach
15	chr3:86224200-86225200	Enhancers	Rectal Smooth Muscle	rectum
16	chr3:86224200-86225400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:86224400-86225600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:86224600-86224800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
19	chr3:86224600-86224800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
20	chr3:86224600-86225000	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr3:86224600-86225200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
22	chr3:86224600-86225800	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr3:86224600-86226000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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