Variant report

Variant	rs1025039
Chromosome Location	chr5:35901857-35901858
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	chr5:35901240..35903407-chr5:35903711..35905458,2	MCF-7	breast:
2	chr5:35901524..35904411-chr5:35904982..35906489,2	K562	blood:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1008756	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1010599	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1010601	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10491434	1.00[JPT][hapmap]
rs1053496	1.00[JPT][hapmap]
rs11567699	1.00[JPT][hapmap]
rs11567701	1.00[JPT][hapmap]
rs11567751	1.00[JPT][hapmap]
rs11949691	1.00[ASN][1000 genomes]
rs11955657	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1345827	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1382347	1.00[JPT][hapmap]
rs1494554	1.00[JPT][hapmap]
rs1494571	1.00[JPT][hapmap]
rs16902573	1.00[ASN][1000 genomes]
rs17376481	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1833907	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2194224	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2287900	1.00[ASN][1000 genomes]
rs2361403	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3194051	1.00[JPT][hapmap]
rs3734107	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3822733	1.00[JPT][hapmap]
rs4024109	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4024110	0.83[ASN][1000 genomes]
rs55654952	0.97[ASN][1000 genomes]
rs59030624	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6859465	0.89[ASN][1000 genomes]
rs6862692	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6871116	1.00[JPT][hapmap]
rs6873195	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6878577	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6878688	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs700179	1.00[JPT][hapmap]
rs72742471	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7702587	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7702828	0.94[ASN][1000 genomes]
rs7705615	1.00[ASN][1000 genomes]
rs7716969	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7719334	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7723452	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs852242	0.89[CEU][hapmap]
rs9764914	0.89[ASN][1000 genomes]
rs9765078	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs984164	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs987107	1.00[JPT][hapmap]
rs990716	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[ASN][1000 genomes]

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	nsv1022761	chr5:35775802-35902546	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv471011	chr5:35861068-36003217	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv830261	chr5:35863084-36018048	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35891400-35902400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr5:35899000-35902800	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr5:35899000-35903000	Enhancers	Primary T killer memory cells from peripheral blood	blood
4	chr5:35899000-35903400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr5:35899000-35906000	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr5:35899000-35909200	Enhancers	Fetal Thymus	thymus
7	chr5:35899200-35903000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr5:35899200-35903400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr5:35899200-35905400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr5:35899400-35903000	Enhancers	Primary T cells from cord blood	blood
11	chr5:35899400-35903400	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr5:35899600-35902600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr5:35899800-35902200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr5:35899800-35902400	Weak transcription	NHDF-Ad	bronchial
15	chr5:35900400-35902400	Flanking Active TSS	Dnd41	blood
16	chr5:35900800-35904600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr5:35901000-35905400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
18	chr5:35901400-35902000	Enhancers	Fetal Brain Female	brain
19	chr5:35901400-35902600	Flanking Active TSS	GM12878-XiMat	blood
20	chr5:35901400-35903400	Enhancers	Thymus	Thymus
21	chr5:35901600-35902400	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr5:35901800-35902400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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