Variant report

Variant	rs3924649
Chromosome Location	chr12:25338274-25338275
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10842508	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs10842509	0.92[CHB][hapmap]
rs11047826	0.85[CHB][hapmap]
rs11047880	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11047882	1.00[CHB][hapmap];0.88[CHD][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11047918	1.00[CHB][hapmap]
rs11533487	1.00[JPT][hapmap]
rs12228277	0.92[CHB][hapmap]
rs12229161	0.85[CHB][hapmap]
rs12229450	1.00[JPT][hapmap]
rs12230737	1.00[CHB][hapmap]
rs12230955	0.87[ASN][1000 genomes]
rs12423489	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs12423778	1.00[JPT][hapmap]
rs12424283	0.92[CHB][hapmap]
rs12427119	1.00[JPT][hapmap]
rs12427141	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs17387444	0.82[CHD][hapmap];1.00[JPT][hapmap]
rs2970532	0.92[CHB][hapmap]
rs3782188	0.85[CHB][hapmap]
rs4441109	0.81[CEU][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes]
rs4623993	1.00[CHB][hapmap]
rs4963852	1.00[JPT][hapmap]
rs4963853	1.00[JPT][hapmap]
rs61763584	0.84[ASN][1000 genomes]
rs73071272	0.90[ASN][1000 genomes]
rs73073207	0.87[ASN][1000 genomes]
rs7312175	1.00[CHB][hapmap]
rs7969931	0.85[CHB][hapmap];0.88[CHD][hapmap]
rs7973746	1.00[CHB][hapmap]
rs7979296	1.00[CHB][hapmap];0.81[CHD][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469169	chr12:24692383-25357680	Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv557775	chr12:24692383-25357680	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv932477	chr12:24705151-25346677	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv1067577	chr12:24791283-25346677	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv529514	chr12:24791283-25346677	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv515612	chr12:25272027-25341177	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv557797	chr12:25272027-25341177	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv898922	chr12:25274593-25408047	Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:25335000-25338600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr12:25337000-25338800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr12:25337400-25338800	Weak transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links