Variant report

Variant	rs12107803
Chromosome Location	chr3:59974114-59974115
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12152244	0.82[AFR][1000 genomes]
rs17061573	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17061678	0.84[AFR][1000 genomes]
rs17061683	0.87[AFR][1000 genomes]
rs17061684	0.82[AFR][1000 genomes]
rs17061689	0.84[AFR][1000 genomes]
rs3821484	0.84[AFR][1000 genomes]
rs41276483	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55666681	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs55804635	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59871933	0.88[AFR][1000 genomes]
rs60590275	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60751140	0.91[AFR][1000 genomes]
rs61148215	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72875141	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72875143	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72877026	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73839797	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv876838	chr3:59952152-59999690	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	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
6	nsv965380	chr3:59970574-59976399	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59965600-59974600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr3:59967400-59974400	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr3:59967400-59993000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr3:59968000-59986600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:59968400-59982600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:59971600-59974200	Weak transcription	Fetal Thymus	thymus
7	chr3:59972000-59974400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:59972000-59977000	Weak transcription	Dnd41	blood
9	chr3:59972200-59974400	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:59972200-59974400	Weak transcription	Thymus	Thymus
11	chr3:59972200-59974600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr3:59972400-59974200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:59972800-59974800	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr3:59972800-59976800	Enhancers	Primary T cells from cord blood	blood
15	chr3:59972800-59980400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr3:59972800-59983600	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr3:59973000-59975600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr3:59973000-59975800	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr3:59973200-59976200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr3:59973200-59977800	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr3:59973600-59974400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links