Variant report

Variant	rs7540564
Chromosome Location	chr1:92957826-92957827
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:92946105..92948838-chr1:92954798..92958203,3	K562	blood:
2	chr1:92956534..92958964-chr1:92961185..92963845,2	K562	blood:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1034218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1059267	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1059268	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10735781	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap]
rs10747446	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.83[EUR][1000 genomes]
rs10782912	0.95[CEU][hapmap];0.85[CHB][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10782936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.92[TSI][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10782937	0.84[EUR][1000 genomes]
rs10874710	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10874711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs10874724	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10874725	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10874726	0.85[EUR][1000 genomes]
rs10874727	0.95[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs11164601	0.94[EUR][1000 genomes]
rs11164607	0.95[CEU][hapmap];0.85[CHB][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs11164608	0.95[CEU][hapmap];0.85[CHB][hapmap];0.94[EUR][1000 genomes]
rs11164785	0.85[EUR][1000 genomes]
rs11164791	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11164796	0.91[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12025792	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.85[EUR][1000 genomes]
rs1325434	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1359490	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes]
rs1886684	1.00[CEU][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1932965	0.82[CHB][hapmap]
rs3903212	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3936944	0.85[EUR][1000 genomes]
rs3936945	0.95[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs3936946	0.82[CHB][hapmap]
rs4000736	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4294422	0.95[CEU][hapmap];0.85[CHB][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs4294424	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap]
rs4484938	0.83[CEU][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4565725	0.94[EUR][1000 genomes]
rs4847267	0.91[CEU][hapmap];0.85[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap]
rs4847432	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4970700	0.95[CEU][hapmap];0.85[CHB][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs4970702	0.95[CEU][hapmap];0.85[CHB][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs4970703	0.95[EUR][1000 genomes]
rs4970707	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4970714	0.86[CEU][hapmap];0.85[CHB][hapmap];0.94[EUR][1000 genomes]
rs6603976	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6603986	0.95[CEU][hapmap];0.85[CHB][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs6603989	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6603992	0.95[CEU][hapmap];0.85[CHB][hapmap];0.85[EUR][1000 genomes]
rs6603997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6660962	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6682801	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6695638	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6697491	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6703440	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs722356	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7417452	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7513775	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7514156	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7514334	0.82[EUR][1000 genomes]
rs7520630	0.95[CEU][hapmap];0.85[CHB][hapmap];0.95[EUR][1000 genomes]
rs7521752	1.00[CEU][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7530780	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap]
rs7535490	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7541942	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs912796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs942753	0.95[CEU][hapmap];0.85[CHB][hapmap];0.92[TSI][hapmap];0.95[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523354	chr1:92931263-93064823	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 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	chr1:92952800-92991400	Weak transcription	Pancreas	Pancrea
2	chr1:92953200-92960400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr1:92954000-92960200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr1:92954000-92960400	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr1:92954200-92960000	Weak transcription	Fetal Thymus	thymus
6	chr1:92955000-92959400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr1:92955600-92960000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr1:92956400-92960000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr1:92956400-92960000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr1:92956400-92960000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr1:92956400-92960000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr1:92956400-92960400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr1:92956600-92959400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr1:92957000-92960400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr1:92957400-92960000	Weak transcription	Primary T cells from cord blood	blood
16	chr1:92957800-92958200	Weak transcription	HepG2	liver

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