Variant report

Variant	rs6782804
Chromosome Location	chr3:60011243-60011244
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs212027	0.87[ASN][1000 genomes]
rs212028	0.90[ASN][1000 genomes]
rs3856659	0.91[CEU][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3912493	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6794968	0.83[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6804301	0.85[EUR][1000 genomes]
rs7614540	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9825153	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9854540	0.83[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 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
5	nsv834707	chr3:60005679-60184046	Weak transcription Enhancers Flanking Active TSS 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	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59996800-60011600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:60000800-60012600	Enhancers	Primary T killer memory cells from peripheral blood	blood
3	chr3:60003600-60012800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr3:60003800-60021200	Weak transcription	Thymus	Thymus
5	chr3:60007000-60014600	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr3:60007400-60016400	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr3:60008000-60014800	Enhancers	Dnd41	blood
8	chr3:60008600-60016400	Enhancers	Primary T cells from cord blood	blood
9	chr3:60008800-60017400	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr3:60009400-60011400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr3:60009400-60012200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:60009600-60011400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr3:60010400-60012000	Enhancers	Fetal Kidney	kidney
14	chr3:60010400-60012000	Enhancers	Fetal Thymus	thymus
15	chr3:60010600-60012200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr3:60010600-60012600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr3:60010800-60012400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr3:60010800-60012400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:60011000-60011800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:60011000-60011800	Enhancers	NH-A	brain
21	chr3:60011000-60012000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:60011000-60012200	Enhancers	Primary hematopoietic stem cells	blood
23	chr3:60011000-60012200	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr3:60011200-60011600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:60011200-60011800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:60011200-60011800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:60011200-60011800	Enhancers	Brain Cingulate Gyrus	brain
28	chr3:60011200-60011800	Enhancers	Colon Smooth Muscle	Colon
29	chr3:60011200-60012000	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr3:60011200-60012000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr3:60011200-60012000	Enhancers	Brain Hippocampus Middle	brain
32	chr3:60011200-60012000	Enhancers	Rectal Smooth Muscle	rectum
33	chr3:60011200-60012200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr3:60011200-60012200	Enhancers	Brain Substantia Nigra	brain

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