Variant report

Variant	rs1936212
Chromosome Location	chr6:140033899-140033900
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:139690703..139692781-chr6:140033196..140035307,2	MCF-7	breast:
2	chr6:140027295..140028995-chr6:140032319..140034577,2	MCF-7	breast:
3	chr6:140033007..140036343-chr6:140037966..140041685,5	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10782270	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs1936213	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1936215	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2327978	0.85[EUR][1000 genomes]
rs4301318	0.89[AFR][1000 genomes]
rs4421208	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.85[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6570371	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.90[TSI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6912263	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6918560	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7739545	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7742530	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7761087	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7761526	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7762375	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs9321751	0.96[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9376448	0.83[AMR][1000 genomes]
rs9376449	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9376459	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9389712	0.88[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9389713	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9403105	1.00[JPT][hapmap]
rs9403108	1.00[AMR][1000 genomes];0.97[EUR][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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv516840	chr6:139960833-140053704	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv464065	chr6:140027836-140085873	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv604766	chr6:140027836-140085873	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1936212	IL22RA2	cis	cerebellum	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140028400-140034200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:140029200-140034200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:140030400-140035200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:140030600-140034600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:140030600-140035200	Weak transcription	K562	blood
6	chr6:140030800-140035000	Weak transcription	Placenta	Placenta
7	chr6:140031200-140034000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr6:140032400-140035000	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr6:140032600-140034000	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr6:140032600-140034200	Enhancers	Fetal Lung	lung
11	chr6:140032600-140035600	Enhancers	NHEK	skin
12	chr6:140032600-140036000	Enhancers	Hela-S3	cervix
13	chr6:140032800-140034000	Enhancers	Muscle Satellite Cultured Cells	--
14	chr6:140032800-140034200	Enhancers	Fetal Heart	heart
15	chr6:140032800-140034200	Enhancers	Osteobl	bone
16	chr6:140032800-140034400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr6:140032800-140035600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:140033000-140034200	Enhancers	NHDF-Ad	bronchial
19	chr6:140033200-140034000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:140033200-140034000	Enhancers	HSMM	muscle
21	chr6:140033200-140035800	Enhancers	HMEC	breast
22	chr6:140033200-140036400	Enhancers	Fetal Intestine Small	intestine
23	chr6:140033400-140034200	Enhancers	Stomach Mucosa	stomach
24	chr6:140033400-140034800	Weak transcription	NHLF	lung
25	chr6:140033800-140035000	Weak transcription	A549	lung
26	chr6:140033800-140036000	Enhancers	Fetal Intestine Large	intestine

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