Variant report

Variant	rs1542755
Chromosome Location	chr3:46272440-46272441
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10510750	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11919943	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11926063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11929489	1.00[ASN][1000 genomes]
rs13060713	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13060802	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13062523	1.00[ASN][1000 genomes]
rs13067058	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069750	0.86[AMR][1000 genomes]
rs13069845	0.86[AMR][1000 genomes]
rs13070099	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13073976	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MKK][hapmap]
rs13075270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13075836	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13080979	0.86[AMR][1000 genomes]
rs13088766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13092160	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095940	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13095946	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13096307	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13096325	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13096371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13096808	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13096905	0.85[AMR][1000 genomes]
rs13097340	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs13097666	0.86[AMR][1000 genomes]
rs13098911	0.86[AMR][1000 genomes]
rs13100243	1.00[CEU][hapmap]
rs1542756	0.98[EUR][1000 genomes]
rs17217831	1.00[CEU][hapmap]
rs17282797	0.86[AMR][1000 genomes]
rs17282922	0.86[AMR][1000 genomes]
rs17283712	1.00[CEU][hapmap]
rs2131092	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2373156	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2856762	0.87[CEU][hapmap];1.00[MKK][hapmap]
rs3091310	1.00[CEU][hapmap]
rs3091314	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs3136667	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[TSI][hapmap]
rs3176824	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3176826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3181076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3181078	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3181080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs33998492	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34005848	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34047458	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34194160	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34280313	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34289272	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34340501	0.86[AMR][1000 genomes]
rs34376347	1.00[ASN][1000 genomes]
rs34378541	0.86[AMR][1000 genomes]
rs34414382	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34423195	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34498313	1.00[ASN][1000 genomes]
rs34531115	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34625088	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34677490	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34692251	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34745455	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34759782	1.00[ASN][1000 genomes]
rs34865316	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34919616	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34985947	1.00[ASN][1000 genomes]
rs35035328	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35195804	1.00[ASN][1000 genomes]
rs35335084	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35354367	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35429781	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35431271	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35481399	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35587265	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35613615	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35614049	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35617677	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35678191	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35775079	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35984988	1.00[ASN][1000 genomes]
rs36000011	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36010446	0.86[AMR][1000 genomes]
rs41432345	1.00[ASN][1000 genomes]
rs41537946	1.00[ASN][1000 genomes]
rs4987053	1.00[CEU][hapmap]
rs57115330	0.93[ASN][1000 genomes]
rs6775046	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327038	0.86[AMR][1000 genomes]
rs71327039	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327040	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327041	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327042	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71327043	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327044	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71615441	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7620586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7624155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7628489	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631551	1.00[CEU][hapmap];0.85[CHB][hapmap];0.92[TSI][hapmap]
rs7651539	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9832730	1.00[CEU][hapmap]
rs9838191	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1542755	CCR1	cis	lymphoblastoid	seeQTL

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46264400-46276400	Weak transcription	Fetal Thymus	thymus
2	chr3:46265600-46276400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:46270400-46273000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr3:46270600-46273800	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr3:46270800-46274600	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr3:46270800-46274600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:46271000-46274600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr3:46271200-46277600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:46272000-46274400	Weak transcription	Primary hematopoietic stem cells	blood

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