Variant report

Variant	rs9851203
Chromosome Location	chr3:56042228-56042229
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	chr3:56037511..56039135-chr3:56041080..56043477,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1023880	0.84[EUR][1000 genomes]
rs11713317	0.82[EUR][1000 genomes]
rs12635043	0.80[EUR][1000 genomes]
rs1350413	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1379721	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1379722	0.92[EUR][1000 genomes]
rs1585225	0.81[EUR][1000 genomes]
rs17056290	0.83[EUR][1000 genomes]
rs17288665	0.84[EUR][1000 genomes]
rs1870273	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1914865	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2219415	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28450246	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2873081	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34309011	0.85[EUR][1000 genomes]
rs3816575	0.84[EUR][1000 genomes]
rs58120479	0.80[EUR][1000 genomes]
rs6766861	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6780386	0.93[EUR][1000 genomes]
rs6783462	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6799706	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73084796	0.85[EUR][1000 genomes]
rs73086151	0.80[EUR][1000 genomes]
rs73086154	0.80[EUR][1000 genomes]
rs73086189	0.84[EUR][1000 genomes]
rs73086201	0.84[EUR][1000 genomes]
rs7356061	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9809605	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9819464	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9827086	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9878600	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1012098	chr3:56040905-56055908	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9851203	ERC2	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56033000-56052000	Weak transcription	Brain Germinal Matrix	brain
2	chr3:56033200-56046800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:56039800-56052400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:56041400-56046600	Weak transcription	Fetal Brain Female	brain
5	chr3:56041600-56044400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:56041600-56054400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr3:56041800-56045600	Weak transcription	Fetal Heart	heart
8	chr3:56041800-56054000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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