Variant report

Variant	rs3912492
Chromosome Location	chr3:60002455-60002456
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12632711	0.95[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs12636081	0.87[JPT][hapmap];0.82[MEX][hapmap]
rs12637950	0.95[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs17061812	0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17061864	0.87[JPT][hapmap]
rs3912494	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6803449	0.91[MEX][hapmap]
rs9311745	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9637471	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][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	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59996800-60011600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:59997200-60005800	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr3:59997600-60003400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr3:59997800-60003000	Weak transcription	Primary B cells from peripheral blood	blood
5	chr3:59999000-60005000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr3:59999400-60003000	Weak transcription	Thymus	Thymus
7	chr3:59999400-60003200	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr3:60000200-60003600	Enhancers	Primary T cells from cord blood	blood
9	chr3:60000800-60012600	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr3:60001200-60004400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr3:60001400-60003000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr3:60001400-60003000	Weak transcription	Fetal Thymus	thymus
13	chr3:60001800-60003200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr3:60002000-60004800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:60002200-60004200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr3:60002200-60004400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr3:60002200-60005800	Enhancers	Primary T cells fromperipheralblood	blood
18	chr3:60002200-60005800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
19	chr3:60002400-60002800	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr3:60002400-60002800	Enhancers	Dnd41	blood
21	chr3:60002400-60004400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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