Variant report

Variant	rs9842626
Chromosome Location	chr3:59864499-59864500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13316171	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs587959	0.82[YRI][hapmap]
rs672802	1.00[YRI][hapmap]
rs72875108	1.00[AMR][1000 genomes]
rs7626705	1.00[AMR][1000 genomes]
rs9311737	1.00[AMR][1000 genomes]
rs9847503	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9863246	1.00[YRI][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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9842626	BMP4	trans	lymphoblastoid	seeQTL
rs9842626	ADAM23	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59854800-59867000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr3:59854800-59870800	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:59855000-59865200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr3:59858000-59865800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:59858200-59865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr3:59859400-59864800	Weak transcription	Thymus	Thymus
7	chr3:59859400-59865000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr3:59862000-59865200	Enhancers	K562	blood
9	chr3:59862400-59864600	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr3:59862600-59868800	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr3:59863000-59864600	Enhancers	HMEC	breast
12	chr3:59863000-59865200	Enhancers	NHEK	skin
13	chr3:59863200-59864600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:59863200-59865200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:59863600-59865200	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr3:59863600-59865200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:59864000-59864600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:59864000-59864800	Enhancers	Primary hematopoietic stem cells	blood
19	chr3:59864000-59864800	Enhancers	Fetal Stomach	stomach
20	chr3:59864000-59866200	Enhancers	Fetal Thymus	thymus
21	chr3:59864000-59867600	Enhancers	Dnd41	blood
22	chr3:59864000-59868600	Enhancers	Primary T cells from cord blood	blood
23	chr3:59864000-59871000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr3:59864200-59865000	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr3:59864200-59868600	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr3:59864400-59866600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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