Variant report

Variant	rs11590373
Chromosome Location	chr1:216780709-216780710
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:216779274..216782113-chr1:216794475..216796920,2	MCF-7	breast:
2	chr1:216772875..216776991-chr1:216777748..216786237,10	MCF-7	breast:
3	chr1:216778086..216780767-chr1:216784639..216786517,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10495031	0.82[AFR][1000 genomes]
rs10779279	1.00[LWK][hapmap]
rs10863253	1.00[LWK][hapmap]
rs10863254	0.86[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap]
rs10863255	0.82[AFR][1000 genomes]
rs10863257	1.00[LWK][hapmap];1.00[MKK][hapmap];0.82[AFR][1000 genomes]
rs11117619	0.82[AFR][1000 genomes]
rs11117622	1.00[ASW][hapmap];0.82[AFR][1000 genomes]
rs11117623	0.82[AFR][1000 genomes]
rs11117625	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.82[AFR][1000 genomes]
rs11117632	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11117633	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11117637	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11117638	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11117639	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11572727	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11572731	1.00[CEU][hapmap];0.85[CHB][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11577409	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11581434	1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11585397	0.82[AFR][1000 genomes]
rs11587086	0.82[AFR][1000 genomes]
rs12120908	1.00[LWK][hapmap]
rs12122051	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12123789	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs12128352	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12129039	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12131827	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12133226	0.82[AFR][1000 genomes]
rs12134503	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12136640	0.80[AMR][1000 genomes]
rs12138981	0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.82[AMR][1000 genomes]
rs12140540	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs12141843	0.81[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12145447	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs1532501	0.86[CHB][hapmap]
rs17669502	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.82[AFR][1000 genomes]
rs17670802	1.00[CHD][hapmap]
rs17671012	1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2173371	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35079003	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72737319	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv549199	chr1:216384908-216814702	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv1003815	chr1:216504235-216836498	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv535289	chr1:216504235-216836498	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv873178	chr1:216714314-216813244	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216775200-216789400	Weak transcription	Right Atrium	heart
2	chr1:216775200-216835400	Weak transcription	Fetal Intestine Small	intestine
3	chr1:216775600-216783600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:216778400-216788800	Weak transcription	Left Ventricle	heart
5	chr1:216779200-216781000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:216779200-216781200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:216779600-216780800	Enhancers	Primary hematopoietic stem cells	blood
8	chr1:216780200-216781000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr1:216780200-216781200	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr1:216780200-216781200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr1:216780400-216785200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr1:216780400-216785600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr1:216780600-216780800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr1:216780600-216785000	Weak transcription	Fetal Heart	heart

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