Variant report

Variant	rs2358712
Chromosome Location	chr5:75580687-75580688
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	chr5:75579207..75582130-chr5:75586458..75589313,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000122012	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10942765	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13174383	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13188781	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1469387	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs1863919	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.91[EUR][1000 genomes]
rs1971744	0.82[CEU][hapmap];0.85[MEX][hapmap];0.91[EUR][1000 genomes]
rs1995381	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.84[MEX][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2270927	0.85[AMR][1000 genomes]
rs2358710	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs246813	0.92[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.85[TSI][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs246814	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs246815	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2913252	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2913255	0.91[EUR][1000 genomes]
rs2913256	0.91[EUR][1000 genomes]
rs2913257	0.82[CEU][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];0.91[EUR][1000 genomes]
rs2913258	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs2913259	0.91[EUR][1000 genomes]
rs2913260	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2913262	0.82[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2913263	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2913265	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2913266	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2937740	1.00[CEU][hapmap]
rs2937741	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs2937742	0.91[EUR][1000 genomes]
rs2937743	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2937744	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2937745	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2937746	0.82[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2937747	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2937748	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.84[MEX][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2937749	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2937750	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2937751	0.81[EUR][1000 genomes]
rs2937752	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2972836	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2972837	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2972838	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2972839	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2972840	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2972843	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2972846	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2972847	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs2972848	0.82[CEU][hapmap];0.91[EUR][1000 genomes]
rs2972849	0.91[EUR][1000 genomes]
rs2972850	0.82[CEU][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.91[EUR][1000 genomes]
rs2972853	1.00[CEU][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2972854	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs31243	0.93[MEX][hapmap];0.85[AMR][1000 genomes]
rs31244	0.92[ASW][hapmap];0.82[CEU][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap];0.96[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];0.85[TSI][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34596551	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35662301	0.83[AMR][1000 genomes]
rs35764719	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35930860	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35966882	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35984318	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4352583	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4496693	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4546360	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4566770	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[ASN][1000 genomes]
rs4566771	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4613682	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[ASN][1000 genomes]
rs6453213	1.00[CEU][hapmap];0.87[YRI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6453214	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67560206	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67771044	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874435	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[ASN][1000 genomes]
rs6875731	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6876070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6891108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7730153	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv870415	chr5:75526088-75738412	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75576000-75582800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr5:75576200-75583200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr5:75576800-75584800	Weak transcription	Gastric	stomach
4	chr5:75580200-75580800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr5:75580400-75580800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:75580400-75586000	Weak transcription	HMEC	breast
7	chr5:75580400-75586400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr5:75580600-75584800	Weak transcription	Pancreas	Pancrea
9	chr5:75580600-75585000	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links