Variant report

Variant	rs3136667
Chromosome Location	chr3:46244284-46244285
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10510750	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs11919943	0.87[CEU][hapmap];0.85[CHB][hapmap];0.82[LWK][hapmap];0.93[TSI][hapmap]
rs11926063	1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[TSI][hapmap]
rs13067058	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13070099	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13073976	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13075270	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[GIH][hapmap];0.93[TSI][hapmap]
rs13075836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13088766	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13092160	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[GIH][hapmap];0.86[TSI][hapmap]
rs13095946	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13096307	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13096325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13096371	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13096808	1.00[CEU][hapmap]
rs13097340	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13100243	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs1542755	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[TSI][hapmap]
rs17217831	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs17283712	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs2373156	1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[TSI][hapmap]
rs2856762	0.87[CEU][hapmap]
rs3091310	1.00[CEU][hapmap]
rs3091314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3176825	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs3176826	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs3181076	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs3181080	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs4987053	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs6775046	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs7620586	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7624155	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs7628489	1.00[CEU][hapmap];0.82[CHB][hapmap]
rs7631551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap]
rs7651539	1.00[CEU][hapmap];0.85[CHB][hapmap];0.87[TSI][hapmap]
rs9832730	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs9838191	1.00[CEU][hapmap];0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv1939093	chr3:46244284-46244285	Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3136667	CCR1	cis	lymphoblastoid	seeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46235400-46247600	Weak transcription	Placenta	Placenta
2	chr3:46235400-46249600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:46239800-46249400	Weak transcription	Primary T cells from cord blood	blood
4	chr3:46241000-46244600	Weak transcription	Spleen	Spleen
5	chr3:46241200-46246600	Genic enhancers	Primary monocytes fromperipheralblood	blood
6	chr3:46241600-46247400	Weak transcription	Brain Substantia Nigra	brain
7	chr3:46242400-46246800	Weak transcription	Brain Hippocampus Middle	brain
8	chr3:46242800-46247400	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
9	chr3:46243000-46244600	Weak transcription	Fetal Lung	lung
10	chr3:46243000-46249000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr3:46243200-46244400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr3:46243200-46244600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:46243200-46244600	Weak transcription	Lung	lung
14	chr3:46243200-46246200	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr3:46243200-46246600	Weak transcription	Adipose Nuclei	Adipose
16	chr3:46243400-46247800	Weak transcription	Duodenum Mucosa	Duodenum
17	chr3:46243600-46247200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:46243800-46244600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:46243800-46249400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:46244000-46246600	Weak transcription	GM12878-XiMat	blood
21	chr3:46244200-46246600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood

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