Variant report

Variant	rs1375556
Chromosome Location	chr3:85634874-85634875
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1014796	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10433499	0.91[ASN][1000 genomes]
rs10433525	0.91[ASN][1000 genomes]
rs10865609	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10865611	0.91[ASN][1000 genomes]
rs11127897	0.91[ASN][1000 genomes]
rs11127898	0.91[ASN][1000 genomes]
rs12054328	0.91[ASN][1000 genomes]
rs12487446	0.82[EUR][1000 genomes]
rs12491722	0.89[ASN][1000 genomes]
rs12494446	0.91[ASN][1000 genomes]
rs12629607	0.91[ASN][1000 genomes]
rs12631046	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12638798	0.91[ASN][1000 genomes]
rs12639564	0.91[ASN][1000 genomes]
rs1375566	0.91[ASN][1000 genomes]
rs1433710	0.83[EUR][1000 genomes]
rs1433713	0.91[EUR][1000 genomes]
rs1449386	0.91[ASN][1000 genomes]
rs1449401	0.91[ASN][1000 genomes]
rs1449402	0.91[ASN][1000 genomes]
rs1449403	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1465716	0.83[EUR][1000 genomes]
rs1551042	0.91[ASN][1000 genomes]
rs1551044	0.91[ASN][1000 genomes]
rs1594795	0.88[EUR][1000 genomes]
rs17023032	0.91[ASN][1000 genomes]
rs17455991	0.91[ASN][1000 genomes]
rs1868533	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1900916	0.91[ASN][1000 genomes]
rs1900917	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1972994	0.81[AFR][1000 genomes]
rs1992967	0.91[ASN][1000 genomes]
rs2044723	0.91[ASN][1000 genomes]
rs2044725	0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2077839	0.85[ASN][1000 genomes]
rs2326315	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2326319	0.91[ASN][1000 genomes]
rs2326381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4637303	0.91[ASN][1000 genomes]
rs4856272	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4856278	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4856597	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4856598	0.91[ASN][1000 genomes]
rs55753638	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60541362	0.91[ASN][1000 genomes]
rs62250501	0.91[ASN][1000 genomes]
rs62250537	0.91[ASN][1000 genomes]
rs62250710	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62252517	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6549027	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6549030	0.91[ASN][1000 genomes]
rs6549031	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6772750	0.83[EUR][1000 genomes]
rs6778223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782190	0.91[ASN][1000 genomes]
rs6807461	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807666	0.91[ASN][1000 genomes]
rs726610	0.91[ASN][1000 genomes]
rs734298	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7614552	0.91[ASN][1000 genomes]
rs7617323	0.91[ASN][1000 genomes]
rs7618124	0.86[ASN][1000 genomes]
rs7623369	0.83[EUR][1000 genomes]
rs7623474	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623947	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651113	0.82[EUR][1000 genomes]
rs9309978	0.83[EUR][1000 genomes]
rs9831848	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9843953	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9846153	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9854888	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1002238	chr3:85357855-85719373	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536619	chr3:85357855-85719373	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv998829	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv536622	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv526621	chr3:85470642-85667683	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1009927	chr3:85497666-85669155	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1006360	chr3:85597755-85683081	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv536629	chr3:85597755-85683081	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1011376	chr3:85599411-85657771	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv590907	chr3:85619451-85694987	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv877101	chr3:85619451-85710336	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85634200-85636200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:85634400-85640800	Weak transcription	Brain Anterior Caudate	brain
3	chr3:85634600-85636200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:85634800-85635600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:85634800-85635800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:85634800-85636000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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