Variant report

Variant	rs3770960
Chromosome Location	chr2:36589575-36589576
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:36587815..36589906-chr2:36591154..36593717,2	MCF-7	breast:
2	chr2:36587314..36589813-chr2:36643724..36646171,2	MCF-7	breast:
3	chr2:36586047..36587747-chr2:36587978..36589584,2	MCF-7	breast:
4	chr2:36581144..36585281-chr2:36586722..36590613,9	MCF-7	breast:
5	chr2:36581644..36585884-chr2:36589453..36593565,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260025	Chromatin interaction
ENSG00000150938	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10176691	0.89[AFR][1000 genomes]
rs11124509	0.81[AFR][1000 genomes]
rs11124512	0.95[JPT][hapmap]
rs11673762	0.85[JPT][hapmap]
rs17018688	0.95[JPT][hapmap]
rs17018699	0.91[JPT][hapmap]
rs17018723	0.91[JPT][hapmap]
rs3770883	0.87[JPT][hapmap]
rs3770884	0.87[JPT][hapmap]
rs3770887	0.86[JPT][hapmap]
rs3770891	0.87[JPT][hapmap]
rs3770899	0.86[JPT][hapmap]
rs3770910	0.91[JPT][hapmap]
rs3770914	0.90[JPT][hapmap]
rs3770922	0.86[JPT][hapmap]
rs3770927	0.91[JPT][hapmap]
rs3821164	0.91[JPT][hapmap]
rs4670552	0.86[JPT][hapmap]
rs57556257	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs876458	0.91[JPT][hapmap]

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	esv2757792	chr2:36243452-36590658	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2759040	chr2:36243452-36590658	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	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:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:36585200-36589600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:36585200-36589600	Weak transcription	Esophagus	oesophagus
3	chr2:36585200-36596400	Weak transcription	Pancreas	Pancrea
4	chr2:36585400-36590000	Transcr. at gene 5' and 3'	A549	lung
5	chr2:36585400-36590400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr2:36585800-36589600	Weak transcription	Lung	lung
7	chr2:36585800-36589800	Enhancers	H1 Cell Line	embryonic stem cell
8	chr2:36585800-36590600	Weak transcription	Colonic Mucosa	Colon
9	chr2:36585800-36596400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr2:36586000-36590200	Enhancers	Skeletal Muscle Male	skeletal muscle
11	chr2:36586000-36590400	Enhancers	Fetal Lung	lung
12	chr2:36586000-36591800	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr2:36586000-36593000	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr2:36586000-36593600	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr2:36586200-36589800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr2:36586200-36589800	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr2:36586200-36603600	Weak transcription	Brain Germinal Matrix	brain
18	chr2:36586200-36626600	Weak transcription	Primary B cells from cord blood	blood
19	chr2:36586400-36591800	Enhancers	Placenta	Placenta
20	chr2:36586600-36589600	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr2:36586600-36589600	Weak transcription	Primary hematopoietic stem cells	blood
22	chr2:36586600-36590000	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
23	chr2:36586600-36596400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr2:36586800-36589800	Enhancers	Fetal Heart	heart
25	chr2:36586800-36589800	Enhancers	Psoas Muscle	Psoas
26	chr2:36586800-36590000	Transcr. at gene 5' and 3'	HUVEC	blood vessel
27	chr2:36586800-36590200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr2:36586800-36592000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr2:36586800-36593800	Weak transcription	Fetal Muscle Leg	muscle
30	chr2:36587000-36590000	Enhancers	Stomach Mucosa	stomach
31	chr2:36587000-36593800	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr2:36587200-36589800	Enhancers	Brain Angular Gyrus	brain
33	chr2:36587200-36589800	Enhancers	Ovary	ovary
34	chr2:36587200-36592000	Enhancers	Placenta Amnion	Placenta Amnion
35	chr2:36587200-36593800	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr2:36587400-36590000	Enhancers	Colon Smooth Muscle	Colon
37	chr2:36587400-36590800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr2:36587400-36590800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr2:36587400-36594000	Weak transcription	Fetal Stomach	stomach
40	chr2:36587600-36589600	Genic enhancers	Hela-S3	cervix
41	chr2:36587600-36589800	Enhancers	Brain Anterior Caudate	brain
42	chr2:36587800-36589600	Enhancers	Duodenum Smooth Muscle	Duodenum
43	chr2:36587800-36590000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr2:36587800-36593800	Weak transcription	Fetal Intestine Small	intestine
45	chr2:36587800-36594000	Weak transcription	Right Ventricle	heart
46	chr2:36588000-36591600	Enhancers	HepG2	liver
47	chr2:36588000-36591800	Genic enhancers	HSMM	muscle
48	chr2:36588000-36593600	Weak transcription	Fetal Kidney	kidney
49	chr2:36588200-36589800	Flanking Active TSS	NHDF-Ad	bronchial
50	chr2:36588200-36590000	Flanking Active TSS	NHLF	lung

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