Variant report

Variant	rs6091891
Chromosome Location	chr20:53098135-53098136
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:53090363..53095555-chr20:53096070..53104073,10	MCF-7	breast:
2	chr20:53098001..53098695-chr7:147280534..147281382,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101134	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11907464	0.82[EUR][1000 genomes]
rs12329481	0.88[CEU][hapmap]
rs13040866	0.82[EUR][1000 genomes]
rs13042185	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs13042986	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs13044898	1.00[CEU][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs1330017	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs16999643	0.88[CEU][hapmap]
rs34310366	0.97[EUR][1000 genomes]
rs34433522	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34502501	0.97[EUR][1000 genomes]
rs34616206	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34683517	0.97[EUR][1000 genomes]
rs35269605	0.87[EUR][1000 genomes]
rs35276316	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35321528	0.89[EUR][1000 genomes]
rs6014019	0.88[CEU][hapmap]
rs6014020	0.88[CEU][hapmap]
rs6014027	1.00[CEU][hapmap]
rs6014032	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6023244	0.88[CEU][hapmap]
rs6023245	0.88[CEU][hapmap]
rs6023251	0.88[CEU][hapmap]
rs6023254	0.88[CEU][hapmap]
rs6023269	0.82[EUR][1000 genomes]
rs6023270	0.82[EUR][1000 genomes]
rs6023272	1.00[CEU][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6023273	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs6023274	1.00[CEU][hapmap];0.84[YRI][hapmap];1.00[EUR][1000 genomes]
rs6023275	1.00[CEU][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6023276	1.00[CEU][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6023291	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs6023307	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs6023309	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6023323	0.85[TSI][hapmap]
rs6091886	0.88[CEU][hapmap]
rs6091890	0.81[EUR][1000 genomes]
rs6098005	0.84[EUR][1000 genomes]
rs6098006	1.00[CEU][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6098007	1.00[CEU][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6098008	1.00[CEU][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6098009	1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];1.00[EUR][1000 genomes]
rs6098011	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs66631852	0.87[EUR][1000 genomes]
rs67687183	0.97[EUR][1000 genomes]
rs922398	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.80[AMR][1000 genomes];1.00[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	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53093400-53106400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr20:53093800-53099000	Weak transcription	Ovary	ovary
3	chr20:53094000-53111600	Weak transcription	Fetal Muscle Leg	muscle
4	chr20:53096200-53103000	Weak transcription	Osteobl	bone
5	chr20:53096600-53099000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr20:53097200-53099000	Weak transcription	Fetal Brain Male	brain
7	chr20:53097200-53099200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr20:53097400-53098400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr20:53097400-53115200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr20:53098000-53098400	Enhancers	Fetal Brain Female	brain

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