Variant report

Variant	rs7650147
Chromosome Location	chr3:105575410-105575411
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105567530..105570429-chr3:105573055..105575422,2	MCF-7	breast:
2	chr3:105553976..105556329-chr3:105573888..105575863,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12485832	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12486371	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12487841	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496588	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs2455887	0.86[ASN][1000 genomes]
rs3772512	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56344829	0.89[AMR][1000 genomes]
rs58882222	0.86[ASN][1000 genomes]
rs6437623	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778745	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791765	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793018	0.92[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796362	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997629	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997684	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639888	0.81[CEU][hapmap];0.91[AMR][1000 genomes]
rs9657910	1.00[CHB][hapmap]
rs9820060	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841798	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9876110	0.81[CEU][hapmap];0.89[AMR][1000 genomes]
rs9880744	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1008564	chr3:105554580-105643435	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1008876	chr3:105554580-105645373	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv877312	chr3:105560638-105916506	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105543400-105581200	Weak transcription	Gastric	stomach
2	chr3:105544200-105584600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:105546600-105586200	Weak transcription	Esophagus	oesophagus
4	chr3:105555800-105576600	Weak transcription	Psoas Muscle	Psoas
5	chr3:105556200-105579000	Weak transcription	Stomach Mucosa	stomach
6	chr3:105557800-105579200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:105557800-105586200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:105558600-105586600	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr3:105561600-105586200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:105562000-105586000	Weak transcription	K562	blood
11	chr3:105563000-105584600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr3:105563000-105586800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:105563400-105583000	Weak transcription	Spleen	Spleen
14	chr3:105563800-105584400	Weak transcription	Brain Angular Gyrus	brain
15	chr3:105564800-105585000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:105565600-105584800	Weak transcription	NHEK	skin
17	chr3:105566200-105584800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:105566200-105585000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:105566600-105581200	Weak transcription	Aorta	Aorta
20	chr3:105566600-105584600	Weak transcription	Fetal Stomach	stomach
21	chr3:105567000-105576600	Weak transcription	Right Ventricle	heart
22	chr3:105567000-105578800	Weak transcription	Fetal Brain Male	brain
23	chr3:105567000-105583000	Weak transcription	Brain Substantia Nigra	brain
24	chr3:105567000-105584200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:105567200-105576600	Weak transcription	Ovary	ovary
26	chr3:105567200-105583200	Weak transcription	Brain Hippocampus Middle	brain
27	chr3:105567200-105584000	Weak transcription	Brain Anterior Caudate	brain
28	chr3:105567200-105584600	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:105568000-105586200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr3:105568000-105586200	Weak transcription	Pancreas	Pancrea
31	chr3:105568400-105576000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr3:105568400-105576800	Weak transcription	Small Intestine	intestine
33	chr3:105568600-105579600	Strong transcription	Osteobl	bone
34	chr3:105568800-105579200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr3:105568800-105586200	Weak transcription	Colonic Mucosa	Colon
36	chr3:105569400-105576600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr3:105569400-105584000	Weak transcription	A549	lung
38	chr3:105569600-105579600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr3:105569800-105586200	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr3:105570000-105578800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:105570200-105584200	Weak transcription	Brain Cingulate Gyrus	brain
42	chr3:105570600-105575800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:105570600-105576200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr3:105570600-105584200	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr3:105570800-105576000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr3:105571000-105582200	Weak transcription	Brain Germinal Matrix	brain
47	chr3:105571200-105576400	Weak transcription	Fetal Brain Female	brain
48	chr3:105571200-105584600	Weak transcription	NHLF	lung
49	chr3:105572000-105576600	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr3:105572000-105578200	ZNF genes & repeats	GM12878-XiMat	blood

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