Variant report

Variant	rs543936
Chromosome Location	chr11:100926923-100926924
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr11:100926712-100926962	MCF-7	breast:	n/a	chr11:100926713-100926734 chr11:100926717-100926727 chr11:100926720-100926729 chr11:100926719-100926729 chr11:100926720-100926729
2	GATA3	chr11:100926605-100926977	T-47D	breast:	n/a	chr11:100926713-100926734 chr11:100926717-100926727 chr11:100926720-100926729 chr11:100926719-100926729 chr11:100926720-100926729
3	ESR1	chr11:100926693-100927004	T-47D	breast:	n/a	n/a
4	ESR1	chr11:100926622-100927039	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:100926600..100927336-chr11:101206798..101207521,2	MCF-7	breast:

Variant related genes	Relation type
PGR	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs471767	0.88[TSI][hapmap]
rs477151	0.88[EUR][1000 genomes]
rs492457	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];0.93[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs502465	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs503194	0.88[EUR][1000 genomes]
rs503362	1.00[CEU][hapmap];0.94[GIH][hapmap];0.85[TSI][hapmap]
rs518300	0.88[EUR][1000 genomes]
rs519792	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs529216	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs534200	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs545004	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs545845	1.00[CEU][hapmap];0.94[GIH][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs552916	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];0.86[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs561610	0.87[CEU][hapmap]
rs577615	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs578029	0.95[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs639838	0.83[CEU][hapmap]
rs658370	0.84[EUR][1000 genomes]
rs660149	0.95[CEU][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs666207	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs679275	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];0.93[MEX][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[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	nsv1048356	chr11:100713096-101058995	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv541154	chr11:100713096-101058995	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:100905200-100935800	Weak transcription	Colon Smooth Muscle	Colon
2	chr11:100905400-100997600	Weak transcription	Left Ventricle	heart
3	chr11:100914400-100935600	Weak transcription	Aorta	Aorta
4	chr11:100918800-100930800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr11:100920800-100927000	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links