Variant report

Variant	rs1575054
Chromosome Location	chr6:64443595-64443596
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:64282444..64284956-chr6:64441888..64443717,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112245	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10485358	0.92[CEU][hapmap];0.90[JPT][hapmap];0.89[YRI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1057530	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10755432	0.92[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10943975	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1212828	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12190601	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12198142	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12205302	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs170347	0.91[JPT][hapmap];0.86[YRI][hapmap]
rs1884117	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1889096	0.80[AMR][1000 genomes]
rs319920	0.90[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs319923	0.80[AMR][1000 genomes]
rs319924	0.90[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs319925	0.87[JPT][hapmap];0.95[YRI][hapmap];0.81[AMR][1000 genomes]
rs4562122	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4710437	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4710440	0.90[JPT][hapmap];0.89[YRI][hapmap]
rs62412950	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67875483	0.83[AMR][1000 genomes]
rs6921180	0.92[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6932538	0.96[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7767473	0.85[CEU][hapmap];0.90[JPT][hapmap];0.81[EUR][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	nsv830674	chr6:64355412-64535801	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1022376	chr6:64386826-64445195	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	3 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	chr6:64423600-64444400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr6:64424200-64450400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:64436400-64444600	Weak transcription	HepG2	liver
4	chr6:64436800-64445400	Weak transcription	Primary T cells from cord blood	blood
5	chr6:64437400-64459600	Weak transcription	Aorta	Aorta
6	chr6:64437800-64445000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:64441400-64443600	Enhancers	Hela-S3	cervix
8	chr6:64441600-64443800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:64442000-64451800	Weak transcription	Fetal Intestine Small	intestine
10	chr6:64442000-64451800	Weak transcription	Small Intestine	intestine
11	chr6:64442200-64444600	Weak transcription	NHEK	skin
12	chr6:64442400-64445400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:64442400-64450200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:64443000-64444600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:64443200-64444600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:64443200-64444600	Weak transcription	HMEC	breast

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