Variant report

Variant	rs58288282
Chromosome Location	chr2:190178034-190178035
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10164448	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10198505	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10755003	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10931409	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1464262	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1473999	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1515867	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1606931	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831217	0.97[EUR][1000 genomes]
rs16831356	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16841601	0.97[EUR][1000 genomes]
rs17270980	0.97[EUR][1000 genomes]
rs2030293	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2102874	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2176649	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2351634	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2683011	0.91[EUR][1000 genomes]
rs4031918	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4494782	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4666773	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56920210	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58796942	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6434335	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73978612	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73978617	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73978620	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73978626	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73978632	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73978633	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73982009	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73982031	0.81[EUR][1000 genomes]
rs7591652	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7596033	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7599676	0.80[AFR][1000 genomes]
rs870921	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs870922	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs939157	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs939159	0.87[AMR][1000 genomes];0.97[EUR][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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv961541	chr2:190172230-190181918	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190175600-190178200	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr2:190175800-190179200	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr2:190176200-190178400	Enhancers	Primary T killer memory cells from peripheral blood	blood
4	chr2:190176200-190178800	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr2:190176200-190180600	Enhancers	Primary T cells from cord blood	blood
6	chr2:190176400-190178400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr2:190176400-190178600	Enhancers	Fetal Thymus	thymus
8	chr2:190176400-190179200	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr2:190177000-190178200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr2:190177000-190179200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr2:190177800-190179800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr2:190178000-190179000	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links