Variant report

Variant	rs3770939
Chromosome Location	chr2:36617528-36617529
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:36591186..36592777-chr2:36616615..36618632,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10184083	0.86[ASN][1000 genomes]
rs10184188	0.87[ASN][1000 genomes]
rs11885390	0.91[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11891181	0.91[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12712499	0.91[JPT][hapmap]
rs12712501	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17018675	0.81[CHB][hapmap]
rs34582671	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3770911	0.83[CHB][hapmap];0.84[CHD][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs3770912	0.92[ASN][1000 genomes]
rs3770919	1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3770928	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3770935	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3770938	0.91[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs3770941	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3770943	0.83[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3770949	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3821162	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4670145	0.91[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4670553	0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs67044425	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67501694	0.83[ASN][1000 genomes]
rs72785173	0.89[ASN][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	nsv833803	chr2:36589065-36745779	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:36586200-36626600	Weak transcription	Primary B cells from cord blood	blood
2	chr2:36604400-36620600	Weak transcription	Fetal Brain Male	brain
3	chr2:36604400-36640400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr2:36604400-36640600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr2:36604600-36617600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr2:36604600-36620800	Weak transcription	Brain Hippocampus Middle	brain
7	chr2:36607600-36620800	Weak transcription	Pancreas	Pancrea
8	chr2:36609200-36619800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr2:36609400-36620000	Weak transcription	Lung	lung
10	chr2:36610400-36617800	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr2:36611600-36619800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr2:36611600-36632400	Weak transcription	Esophagus	oesophagus
13	chr2:36611600-36635400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr2:36613000-36624000	Weak transcription	Small Intestine	intestine
15	chr2:36614000-36617600	Enhancers	Fetal Heart	heart
16	chr2:36614000-36617600	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr2:36614000-36617600	Genic enhancers	HSMM	muscle
18	chr2:36614000-36617800	Enhancers	Placenta Amnion	Placenta Amnion
19	chr2:36614800-36620000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr2:36614800-36620200	Weak transcription	Right Ventricle	heart
21	chr2:36614800-36621400	Weak transcription	Stomach Mucosa	stomach
22	chr2:36615400-36617800	Enhancers	Psoas Muscle	Psoas
23	chr2:36615600-36617600	Enhancers	Fetal Muscle Leg	muscle
24	chr2:36615800-36617600	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr2:36616200-36617600	Enhancers	Fetal Stomach	stomach
26	chr2:36616400-36617600	Genic enhancers	Placenta	Placenta
27	chr2:36616400-36617800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr2:36616400-36620800	Weak transcription	Right Atrium	heart
29	chr2:36616400-36621000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr2:36616600-36617600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr2:36616600-36617600	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr2:36616600-36617800	Genic enhancers	NHLF	lung
33	chr2:36616600-36617800	Genic enhancers	Osteobl	bone
34	chr2:36616600-36618800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr2:36616600-36619600	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr2:36616600-36619800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr2:36616600-36620200	Weak transcription	Brain Germinal Matrix	brain
38	chr2:36616600-36620800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr2:36616800-36617600	Genic enhancers	Aorta	Aorta
40	chr2:36616800-36617600	Genic enhancers	NHDF-Ad	bronchial
41	chr2:36616800-36617800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr2:36616800-36620800	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr2:36616800-36624200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr2:36616800-36631200	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr2:36616800-36635000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr2:36617000-36617600	Strong transcription	NHEK	skin
47	chr2:36617000-36617800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr2:36617000-36617800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr2:36617000-36617800	Genic enhancers	HUVEC	blood vessel
50	chr2:36617000-36618200	Enhancers	Primary hematopoietic stem cells	blood

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