Variant report

Variant	rs1877709
Chromosome Location	chr4:28437230-28437231
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-STIM2-4	chr4:28437071-28437412	ENSG00000250064

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10939214	0.84[AFR][1000 genomes]
rs11931385	0.85[AMR][1000 genomes]
rs2089774	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2221776	0.84[AFR][1000 genomes]
rs33987094	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34477336	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61794988	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61794989	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61795017	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73224027	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878775	chr4:28163856-28473048	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1000514	chr4:28192982-28445194	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1010133	chr4:28273244-28642942	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1014938	chr4:28277683-28642942	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28429200-28445000	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr4:28436000-28438400	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr4:28436200-28438400	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr4:28436200-28438600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:28436200-28439000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:28436200-28439000	Enhancers	NHEK	skin
7	chr4:28436200-28439200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr4:28436400-28438800	Enhancers	HMEC	breast
9	chr4:28436600-28438800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr4:28436600-28439000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr4:28436800-28438200	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr4:28437000-28437400	Enhancers	Fetal Intestine Small	intestine
13	chr4:28437000-28438200	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr4:28437000-28438600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr4:28437000-28438600	Enhancers	Fetal Intestine Large	intestine
16	chr4:28437000-28438800	Enhancers	Placenta Amnion	Placenta Amnion
17	chr4:28437200-28437400	Enhancers	Fetal Kidney	kidney
18	chr4:28437200-28437600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
19	chr4:28437200-28437600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr4:28437200-28437600	Active TSS	Ovary	ovary
21	chr4:28437200-28438000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr4:28437200-28438200	Enhancers	H1 Cell Line	embryonic stem cell

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