Variant report

Variant	rs941999
Chromosome Location	chr10:98041610-98041611
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10509707	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882768	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11188699	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11188710	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs11188731	1.00[CEU][hapmap]
rs12242936	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs12250473	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12257639	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12411820	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12414495	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12414529	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12569756	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs12570008	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs12572610	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12573362	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs17111536	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17111540	1.00[CEU][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17111736	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs1902704	0.84[CHD][hapmap];0.87[GIH][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs2069238	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2146385	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs2146391	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2273892	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs2861306	0.85[JPT][hapmap]
rs3762093	0.81[AMR][1000 genomes]
rs3789933	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3789939	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes]
rs3789940	0.87[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap]
rs41291614	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4917730	0.87[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4919000	0.84[CHD][hapmap];0.86[JPT][hapmap]
rs57519557	0.92[AMR][1000 genomes]
rs6584061	0.86[JPT][hapmap]
rs6584064	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs67425977	0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7069190	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7072251	0.87[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.91[ASN][1000 genomes]
rs7074775	0.80[AMR][1000 genomes]
rs7078316	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7083595	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7091809	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72637514	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72637515	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72637516	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72640001	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73318874	0.80[AFR][1000 genomes]
rs734225	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs734226	1.00[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap]
rs7896766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7905402	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7919557	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7919588	0.91[ASN][1000 genomes]
rs7919799	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7922788	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs941998	0.86[EUR][1000 genomes];0.99[ASN][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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98032400-98047200	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr10:98034200-98042200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr10:98036400-98044800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr10:98036400-98045200	Weak transcription	Gastric	stomach
5	chr10:98039200-98046400	Weak transcription	Stomach Mucosa	stomach
6	chr10:98039400-98043000	Weak transcription	Primary B cells from peripheral blood	blood
7	chr10:98039400-98045200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr10:98039600-98044800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr10:98040000-98042000	Enhancers	HMEC	breast
10	chr10:98040000-98045200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:98040200-98043600	Weak transcription	Primary B cells from cord blood	blood
12	chr10:98041600-98041800	Enhancers	Liver	Liver
13	chr10:98041600-98042600	Weak transcription	Placenta	Placenta
14	chr10:98041600-98047000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:98041600-98047000	Weak transcription	NHEK	skin

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