Variant report

Variant	rs6549081
Chromosome Location	chr3:86224706-86224707
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	chr21:19140307..19141117-chr3:86224171..86225016,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1033139	0.89[EUR][1000 genomes]
rs34647294	0.89[EUR][1000 genomes]
rs4624562	0.86[EUR][1000 genomes]
rs6780632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623099	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7625548	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7651338	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9814386	0.89[EUR][1000 genomes]
rs9814869	0.89[EUR][1000 genomes]
rs9837815	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9852147	0.89[EUR][1000 genomes]
rs9857114	0.89[EUR][1000 genomes]
rs9867155	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9867266	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875820	0.89[EUR][1000 genomes]
rs9882827	0.82[AFR][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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