Variant report

Variant	rs2620441
Chromosome Location	chr7:147001975-147001976
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10085764	0.89[YRI][hapmap]
rs1021008	0.85[CHB][hapmap];0.85[MEX][hapmap]
rs10225100	0.90[CHB][hapmap];0.89[YRI][hapmap]
rs10234386	0.85[CHB][hapmap]
rs10242430	0.89[YRI][hapmap]
rs10248220	0.94[CHB][hapmap]
rs10251412	0.86[YRI][hapmap]
rs10261539	0.89[CHB][hapmap]
rs10261547	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs10262107	0.88[YRI][hapmap]
rs10808044	0.85[CHB][hapmap];0.84[MKK][hapmap];0.86[YRI][hapmap]
rs10952678	0.85[CHB][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs12531764	0.85[CHB][hapmap]
rs12534978	0.85[CHB][hapmap]
rs12703895	0.85[CHB][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs13235260	0.85[CHB][hapmap]
rs1383011	0.85[CHB][hapmap]
rs1404703	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1404706	0.92[ASN][1000 genomes]
rs1404707	0.85[CHB][hapmap]
rs1479837	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1479838	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1479839	0.92[ASN][1000 genomes]
rs1479840	0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1525208	0.92[ASN][1000 genomes]
rs1525209	0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1525210	0.92[ASN][1000 genomes]
rs1525211	0.85[CHB][hapmap];0.93[YRI][hapmap]
rs1525215	0.85[CHB][hapmap];0.90[MEX][hapmap]
rs1525216	0.89[CHB][hapmap]
rs1917600	0.95[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap]
rs2373026	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2620439	0.85[CHB][hapmap]
rs2620440	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2620443	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2620446	0.85[CHB][hapmap];0.94[JPT][hapmap]
rs2620447	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2620450	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2620452	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs2620454	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs2620455	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2620460	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2620464	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs2620465	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2620467	1.00[JPT][hapmap]
rs2692139	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs2692140	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs2692141	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs2692143	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692144	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692145	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692146	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692149	0.80[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs2692150	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692151	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs2692154	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs2692157	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs2692158	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692162	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2692163	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692164	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs2692168	0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2692170	0.92[ASN][1000 genomes]
rs2692173	0.92[ASN][1000 genomes]
rs2692174	0.92[ASN][1000 genomes]
rs2692175	0.88[ASN][1000 genomes]
rs2692176	0.95[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs2692177	0.92[ASN][1000 genomes]
rs2692178	0.92[ASN][1000 genomes]
rs2692179	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2692180	0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2692182	0.94[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs2692183	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2692185	0.88[JPT][hapmap]
rs2692186	0.93[YRI][hapmap]
rs2692187	0.85[CHB][hapmap];0.85[YRI][hapmap]
rs34748606	0.81[AFR][1000 genomes]
rs4269450	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs6974852	0.85[CHB][hapmap]
rs728720	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs899612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs899613	0.94[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs899614	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs899615	0.95[CHB][hapmap];0.93[JPT][hapmap];0.97[ASN][1000 genomes]
rs899616	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9969115	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs9969256	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933033	chr7:146720301-147081560	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1033898	chr7:146721499-147081768	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv931005	chr7:146730472-147381257	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv889396	chr7:146854133-147035067	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1026360	chr7:146988190-147012081	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv1033398	chr7:146989035-147101573	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
7	nsv1029946	chr7:146993413-147021947	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
8	nsv465192	chr7:147001077-147086045	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
9	nsv608943	chr7:147001077-147086045	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2620441	TAS2R39	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:146996400-147008000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr7:147000600-147002600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr7:147000800-147002200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr7:147001000-147002200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr7:147001800-147002200	Enhancers	Primary hematopoietic stem cells	blood

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