Variant report

Variant	rs17228641
Chromosome Location	chr15:33024808-33024809
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	chr15:33021660..33023640-chr15:33024034..33026405,2	MCF-7	breast:
2	chr15:33023317..33025031-chr15:33032090..33034527,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166923	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10519756	1.00[LWK][hapmap]
rs1129456	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs11631339	1.00[LWK][hapmap]
rs17525764	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17816387	1.00[LWK][hapmap]
rs28433691	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28436730	0.97[EUR][1000 genomes]
rs28439346	0.87[EUR][1000 genomes]
rs28473724	0.96[EUR][1000 genomes]
rs28482374	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28564029	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28569405	0.84[EUR][1000 genomes]
rs28574716	0.85[EUR][1000 genomes]
rs28585618	0.89[EUR][1000 genomes]
rs28615915	0.91[EUR][1000 genomes]
rs28616589	0.85[EUR][1000 genomes]
rs28617440	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28767884	0.97[EUR][1000 genomes]
rs28768389	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28840420	0.99[EUR][1000 genomes]
rs28855511	0.84[EUR][1000 genomes]
rs3207357	0.96[EUR][1000 genomes]
rs7175986	0.97[EUR][1000 genomes]
rs7178265	1.00[LWK][hapmap]
rs8041794	0.84[EUR][1000 genomes]
rs9920024	0.91[CEU][hapmap];0.91[EUR][1000 genomes]
rs9920792	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv482680	chr15:32958401-33154005	Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv832961	chr15:33021177-33134988	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33021800-33025000	Weak transcription	Brain Hippocampus Middle	brain
2	chr15:33021800-33025600	Genic enhancers	NHDF-Ad	bronchial
3	chr15:33022000-33025200	Genic enhancers	Muscle Satellite Cultured Cells	--
4	chr15:33022000-33025200	Genic enhancers	Osteobl	bone
5	chr15:33022800-33025000	Bivalent Enhancer	Fetal Brain Male	brain
6	chr15:33023000-33025400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr15:33023000-33025800	ZNF genes & repeats	Fetal Intestine Large	intestine
8	chr15:33023200-33025200	Strong transcription	HSMM	muscle
9	chr15:33023200-33025800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr15:33023200-33025800	Enhancers	Liver	Liver
11	chr15:33023400-33025000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr15:33023400-33025200	Strong transcription	HSMMtube	muscle
13	chr15:33023400-33025800	Strong transcription	Duodenum Smooth Muscle	Duodenum
14	chr15:33023400-33028600	Strong transcription	NH-A	brain
15	chr15:33023600-33026200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr15:33023600-33027200	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr15:33023600-33028200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr15:33023600-33029200	Strong transcription	Stomach Smooth Muscle	stomach
19	chr15:33023600-33035800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:33024200-33025200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr15:33024200-33029200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:33024400-33025000	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr15:33024800-33025000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr15:33024800-33026000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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