Variant report

Variant	rs10227687
Chromosome Location	chr7:38741626-38741627
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	chr7:38740549..38744081-chr7:38747124..38750067,4	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10247503	0.84[JPT][hapmap]
rs10486677	0.90[JPT][hapmap]
rs10486678	0.90[JPT][hapmap]
rs11772698	0.82[ASN][1000 genomes]
rs11980882	0.80[JPT][hapmap]
rs12667567	0.89[ASN][1000 genomes]
rs12672793	0.95[JPT][hapmap]
rs12672885	0.89[JPT][hapmap]
rs12674115	0.86[JPT][hapmap]
rs12701652	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs12701654	0.96[ASN][1000 genomes]
rs12701655	0.96[ASN][1000 genomes]
rs1468348	0.90[JPT][hapmap]
rs17700142	0.95[JPT][hapmap]
rs17700172	0.90[JPT][hapmap]
rs17700262	0.90[JPT][hapmap]
rs17700752	0.89[JPT][hapmap]
rs17767695	0.81[ASN][1000 genomes]
rs17767818	0.95[JPT][hapmap]
rs17768153	0.90[JPT][hapmap]
rs17768711	0.84[JPT][hapmap]
rs17768753	0.80[JPT][hapmap]
rs1859937	0.86[JPT][hapmap]
rs1864886	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs2074655	0.90[JPT][hapmap]
rs2074657	0.95[JPT][hapmap]
rs2189855	0.90[JPT][hapmap]
rs2240351	0.85[JPT][hapmap]
rs2240352	0.90[JPT][hapmap]
rs2240353	0.90[JPT][hapmap]
rs2286086	0.83[JPT][hapmap]
rs2286088	0.90[JPT][hapmap]
rs2286098	0.90[JPT][hapmap]
rs2286105	0.90[JPT][hapmap]
rs2286106	0.85[JPT][hapmap]
rs2286109	0.95[JPT][hapmap]
rs2392598	0.83[JPT][hapmap]
rs34724372	0.86[JPT][hapmap]
rs35627687	0.94[ASN][1000 genomes]
rs3801139	0.90[JPT][hapmap]
rs3801140	0.90[JPT][hapmap]
rs3801143	0.85[JPT][hapmap]
rs3801145	0.85[JPT][hapmap]
rs4723785	0.80[JPT][hapmap]
rs6964269	0.96[ASN][1000 genomes]
rs6968515	0.96[ASN][1000 genomes]
rs6968660	0.96[ASN][1000 genomes]
rs6968720	0.96[ASN][1000 genomes]
rs6968795	0.95[ASN][1000 genomes]
rs6969119	0.96[ASN][1000 genomes]
rs733150	0.85[JPT][hapmap]
rs7783695	0.86[JPT][hapmap]
rs7785911	0.85[JPT][hapmap]
rs7795874	0.85[JPT][hapmap]
rs7810938	0.98[ASN][1000 genomes]
rs886646	0.87[JPT][hapmap]
rs9692361	0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887965	chr7:38706384-38793243	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10227687	TXNDC3	cis	lymphoblastoid	seeQTL
rs10227687	TBX20	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38739600-38743400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr7:38739600-38743600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr7:38740600-38743800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr7:38740800-38742800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr7:38741600-38742200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr7:38741600-38742400	Enhancers	HMEC	breast

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