Variant report

Variant	rs17061328
Chromosome Location	chr3:59870257-59870258
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs11924342	0.82[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs11924368	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs1352021	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17061320	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17061335	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17061338	0.82[YRI][hapmap]
rs17061352	0.82[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs17061366	1.00[JPT][hapmap]
rs17061380	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs17061381	1.00[JPT][hapmap]
rs17061388	0.86[GIH][hapmap];1.00[JPT][hapmap]
rs17299290	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17299801	0.86[GIH][hapmap];1.00[JPT][hapmap]
rs17365142	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17365190	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4368451	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55720112	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55853504	0.91[EUR][1000 genomes]
rs55903427	1.00[EUR][1000 genomes]
rs55912826	1.00[EUR][1000 genomes]
rs56010440	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56052110	1.00[EUR][1000 genomes]
rs56145583	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56156676	1.00[EUR][1000 genomes]
rs56192120	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56233685	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56242402	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56296352	1.00[EUR][1000 genomes]
rs56378945	1.00[EUR][1000 genomes]
rs602197	1.00[JPT][hapmap]
rs620113	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs687069	0.81[GIH][hapmap];1.00[JPT][hapmap]
rs73100603	0.91[EUR][1000 genomes]
rs73100604	1.00[EUR][1000 genomes]
rs73100605	1.00[EUR][1000 genomes]
rs73100606	1.00[EUR][1000 genomes]
rs73100610	1.00[EUR][1000 genomes]
rs73100612	1.00[EUR][1000 genomes]
rs73100624	1.00[EUR][1000 genomes]
rs73100625	1.00[EUR][1000 genomes]
rs73100626	1.00[EUR][1000 genomes]
rs73100627	1.00[EUR][1000 genomes]
rs73100628	1.00[EUR][1000 genomes]
rs73100629	1.00[EUR][1000 genomes]
rs73100630	1.00[EUR][1000 genomes]
rs73100634	1.00[EUR][1000 genomes]
rs73100635	0.91[EUR][1000 genomes]
rs73100637	1.00[EUR][1000 genomes]
rs73100638	1.00[EUR][1000 genomes]
rs73100641	0.96[EUR][1000 genomes]
rs73100643	1.00[EUR][1000 genomes]
rs73100644	1.00[EUR][1000 genomes]
rs73100649	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100651	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100660	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100663	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100666	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100668	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100670	1.00[ASN][1000 genomes]
rs73100672	1.00[ASN][1000 genomes]
rs73100675	1.00[ASN][1000 genomes]
rs73100688	1.00[ASN][1000 genomes]
rs73100697	1.00[ASN][1000 genomes]
rs750793	1.00[JPT][hapmap]
rs9864403	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs9868156	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv460565	chr3:59842644-59877988	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv470616	chr3:59842644-59877988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv590385	chr3:59842644-59877988	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv590386	chr3:59846067-59912377	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17061328	ADAM23	trans	lymphoblastoid	seeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59854800-59870800	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr3:59864000-59871000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr3:59865200-59871000	Weak transcription	Thymus	Thymus
4	chr3:59865600-59871600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:59866200-59871000	Weak transcription	Fetal Thymus	thymus
6	chr3:59867600-59871400	Weak transcription	Dnd41	blood
7	chr3:59868400-59870800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr3:59868600-59870400	Weak transcription	Primary T cells from cord blood	blood
9	chr3:59868800-59870400	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr3:59868800-59870400	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr3:59868800-59882600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:59869400-59873600	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr3:59869400-59873800	Enhancers	Primary hematopoietic stem cells	blood
14	chr3:59869600-59873400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:59869800-59870800	Enhancers	Monocytes-CD14+_RO01746	blood
16	chr3:59869800-59873200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:59870200-59871200	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr3:59870200-59872200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr3:59870200-59874000	Enhancers	Primary T helper naive cells from peripheral blood	blood

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