Variant report

Variant	rs3734621
Chromosome Location	chr6:39304211-39304212
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs56894040	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59865576	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904583	1.00[ASN][1000 genomes]
rs7774977	1.00[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs913473	1.00[GIH][hapmap]
rs9462534	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9462541	1.00[GIH][hapmap]
rs9471075	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs970392	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv533806	chr6:39270073-39397337	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39285600-39307800	Weak transcription	Esophagus	oesophagus
2	chr6:39298800-39305800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:39298800-39306400	Weak transcription	Gastric	stomach
4	chr6:39298800-39307800	Weak transcription	Brain Anterior Caudate	brain
5	chr6:39298800-39310600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:39300400-39304800	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr6:39300600-39307400	Weak transcription	Brain Substantia Nigra	brain
8	chr6:39301000-39304600	Enhancers	Adipose Nuclei	Adipose
9	chr6:39301600-39307200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr6:39302000-39307000	Weak transcription	Fetal Stomach	stomach
11	chr6:39302000-39307600	Weak transcription	Right Atrium	heart
12	chr6:39302200-39307400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr6:39302600-39304600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:39302600-39305000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:39302600-39311400	Enhancers	Primary hematopoietic stem cells	blood
16	chr6:39302800-39304800	Enhancers	HSMM	muscle
17	chr6:39303000-39304600	Enhancers	HMEC	breast
18	chr6:39303200-39304600	Enhancers	Placenta	Placenta
19	chr6:39303200-39304600	Enhancers	Spleen	Spleen
20	chr6:39303400-39304400	Enhancers	HSMMtube	muscle
21	chr6:39303400-39304600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:39303400-39304600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:39303400-39304600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:39303400-39304600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:39303400-39304600	Enhancers	Fetal Thymus	thymus
26	chr6:39303400-39304600	Enhancers	Lung	lung
27	chr6:39303400-39305400	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr6:39303600-39304400	Enhancers	Primary B cells from peripheral blood	blood
29	chr6:39303600-39304400	Enhancers	Primary T helper cells fromperipheralblood	blood
30	chr6:39303600-39304400	Enhancers	Muscle Satellite Cultured Cells	--
31	chr6:39303600-39304400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr6:39303600-39304400	Enhancers	GM12878-XiMat	blood
33	chr6:39303600-39304600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:39303600-39304600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
35	chr6:39303600-39304600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr6:39303600-39304600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:39303600-39304600	Enhancers	Duodenum Mucosa	Duodenum
38	chr6:39303600-39304600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
39	chr6:39303600-39304800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:39303600-39304800	Enhancers	Primary B cells from cord blood	blood
41	chr6:39303600-39304800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
42	chr6:39303600-39304800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr6:39303800-39304400	Enhancers	Fetal Lung	lung
44	chr6:39303800-39304400	Bivalent Enhancer	NHEK	skin
45	chr6:39303800-39304600	Enhancers	ES-I3 Cell Line	embryonic stem cell
46	chr6:39303800-39304600	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr6:39303800-39304600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:39303800-39307800	Weak transcription	Aorta	Aorta
49	chr6:39304000-39304400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr6:39304000-39304400	Enhancers	HUES6 Cell Line	embryonic stem cell

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