Variant report

Variant	rs3942389
Chromosome Location	chr3:155215820-155215821
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10513478	0.91[CEU][hapmap]
rs16825042	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825046	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16825055	0.91[CEU][hapmap]
rs16825058	0.83[CEU][hapmap]
rs2872949	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34050852	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58785850	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66576244	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66856514	0.91[EUR][1000 genomes]
rs66977664	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67476117	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6790399	0.91[CEU][hapmap]
rs68177453	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73154231	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs934591	1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763309	chr3:155193454-155256770	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155187200-155216200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:155195000-155230400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:155196200-155231600	Weak transcription	Gastric	stomach
4	chr3:155197000-155218800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr3:155197800-155216000	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr3:155198400-155230600	Weak transcription	Fetal Intestine Large	intestine
7	chr3:155198800-155221600	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr3:155198800-155230800	Weak transcription	Pancreas	Pancrea
9	chr3:155199000-155229800	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:155200600-155230200	Weak transcription	Duodenum Mucosa	Duodenum
11	chr3:155200800-155218000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:155200800-155223600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:155200800-155251400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:155202400-155230000	Weak transcription	A549	lung
15	chr3:155203000-155216200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr3:155205000-155216200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr3:155205400-155221800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:155206800-155224000	Strong transcription	Dnd41	blood
19	chr3:155208000-155230200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr3:155210400-155220400	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr3:155210600-155216000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:155210600-155222600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:155210800-155237600	Weak transcription	Fetal Kidney	kidney
24	chr3:155212800-155216800	Weak transcription	Primary T cells from cord blood	blood
25	chr3:155212800-155230000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:155213600-155218400	Weak transcription	Fetal Stomach	stomach
27	chr3:155214600-155219400	Strong transcription	Fetal Thymus	thymus
28	chr3:155214600-155219400	Weak transcription	Small Intestine	intestine
29	chr3:155214800-155216600	Strong transcription	Rectal Mucosa Donor 29	rectum
30	chr3:155214800-155217000	Strong transcription	Thymus	Thymus
31	chr3:155214800-155218600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:155215000-155216000	Weak transcription	NHDF-Ad	bronchial
33	chr3:155215000-155230200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:155215000-155230200	Weak transcription	Fetal Intestine Small	intestine
35	chr3:155215200-155216000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr3:155215400-155216400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr3:155215400-155216600	Enhancers	HMEC	breast
38	chr3:155215400-155216800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:155215400-155217000	Enhancers	Osteobl	bone
40	chr3:155215600-155216400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr3:155215600-155216400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr3:155215600-155216800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr3:155215600-155216800	Enhancers	Muscle Satellite Cultured Cells	--
44	chr3:155215600-155217000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr3:155215800-155216400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:155215800-155216400	Enhancers	HSMMtube	muscle
47	chr3:155215800-155216600	Enhancers	NH-A	brain
48	chr3:155215800-155217000	Enhancers	HSMM	muscle
49	chr3:155215800-155218600	Strong transcription	HUES48 Cell Line	embryonic stem cell
50	chr3:155215800-155218600	Strong transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links