Variant report

Variant	rs6543706
Chromosome Location	chr2:33559710-33559711
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10495788	0.84[CHB][hapmap]
rs11685108	1.00[CEU][hapmap]
rs12465738	0.95[ASN][1000 genomes]
rs12474295	0.98[ASN][1000 genomes]
rs1812485	1.00[CEU][hapmap]
rs2167973	0.85[CHB][hapmap]
rs5024713	0.84[CHB][hapmap]
rs57489629	0.95[ASN][1000 genomes]
rs6735677	0.99[ASN][1000 genomes]
rs73925689	0.88[ASN][1000 genomes]
rs963025	1.00[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	nsv1005435	chr2:33136117-33747159	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv535624	chr2:33136117-33747159	Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv873791	chr2:33489975-33586776	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	nsv1012967	chr2:33533340-33638312	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv535627	chr2:33533340-33638312	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33529800-33561000	Weak transcription	HUVEC	blood vessel
2	chr2:33529800-33609400	Weak transcription	Right Ventricle	heart
3	chr2:33540800-33580800	Weak transcription	Placenta	Placenta
4	chr2:33542000-33572200	Weak transcription	Liver	Liver
5	chr2:33547200-33567200	Weak transcription	NH-A	brain
6	chr2:33547600-33560800	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr2:33547600-33567200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr2:33547600-33579800	Weak transcription	Fetal Muscle Leg	muscle
9	chr2:33547800-33581000	Weak transcription	Fetal Lung	lung
10	chr2:33548000-33567200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr2:33548200-33562000	Weak transcription	NHDF-Ad	bronchial
12	chr2:33548200-33562200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr2:33548200-33565400	Weak transcription	NHLF	lung
14	chr2:33548200-33588400	Weak transcription	Colon Smooth Muscle	Colon
15	chr2:33548800-33567000	Weak transcription	Left Ventricle	heart
16	chr2:33549000-33588800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr2:33549200-33560200	Weak transcription	Osteobl	bone
18	chr2:33549200-33563200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr2:33549200-33563600	Weak transcription	Aorta	Aorta
20	chr2:33549200-33565400	Weak transcription	Ovary	ovary
21	chr2:33549200-33567800	Weak transcription	Fetal Heart	heart
22	chr2:33550600-33577600	Weak transcription	Fetal Stomach	stomach
23	chr2:33558400-33592200	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr2:33558800-33561600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr2:33559000-33561200	Enhancers	Cortex derived primary cultured neurospheres	brain
26	chr2:33559000-33561400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr2:33559000-33561600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr2:33559000-33561800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr2:33559400-33560200	Weak transcription	Stomach Smooth Muscle	stomach
30	chr2:33559600-33560600	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links