Variant report

Variant	rs3903888
Chromosome Location	chr1:160475054-160475055
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10797069	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10797072	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10797076	0.95[ASN][1000 genomes]
rs10797077	0.85[ASN][1000 genomes]
rs10797078	0.83[EUR][1000 genomes]
rs11265432	0.95[ASN][1000 genomes]
rs11265433	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11265436	0.83[EUR][1000 genomes]
rs11265438	0.83[EUR][1000 genomes]
rs1149381	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1324734	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1466933	0.83[EUR][1000 genomes]
rs1503856	0.83[EUR][1000 genomes]
rs1503859	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1553458	0.83[EUR][1000 genomes]
rs1590450	0.83[EUR][1000 genomes]
rs2050523	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2134705	0.83[EUR][1000 genomes]
rs2369723	0.83[EUR][1000 genomes]
rs2438181	0.81[EUR][1000 genomes]
rs349250	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs349251	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3737788	0.81[ASN][1000 genomes]
rs3737789	0.85[ASN][1000 genomes]
rs3766390	0.85[ASN][1000 genomes]
rs3845627	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3898642	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3903887	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3904694	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4145896	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4268352	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6413899	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427521	0.80[ASN][1000 genomes]
rs6427523	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6427525	0.95[ASN][1000 genomes]
rs6427530	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6659814	0.83[EUR][1000 genomes]
rs6662885	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6668881	0.83[EUR][1000 genomes]
rs6680709	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680920	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6689237	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6691593	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6696595	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6700440	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6700764	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs724985	0.83[EUR][1000 genomes]
rs7413789	0.83[EUR][1000 genomes]
rs7519809	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7519913	0.81[EUR][1000 genomes]
rs7535796	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7543788	0.83[EUR][1000 genomes]
rs7547372	0.91[ASN][1000 genomes]
rs7555581	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]

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	esv1829614	chr1:160465291-160595000	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv872491	chr1:160470258-160580549	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers 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	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160468000-160477000	ZNF genes & repeats	GM12878-XiMat	blood
2	chr1:160470800-160475400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
3	chr1:160471200-160475200	Weak transcription	Placenta	Placenta
4	chr1:160472000-160475200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:160473800-160475200	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr1:160473800-160475200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr1:160473800-160475600	Strong transcription	Primary B cells from cord blood	blood
8	chr1:160473800-160485800	Weak transcription	Thymus	Thymus
9	chr1:160474400-160475400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr1:160474400-160476000	Weak transcription	Primary T cells from cord blood	blood
11	chr1:160474600-160475200	Strong transcription	Primary B cells from peripheral blood	blood
12	chr1:160474600-160475800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr1:160474600-160475800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr1:160474600-160476000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr1:160474600-160480000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr1:160475000-160476000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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