Variant report

Variant	rs7874307
Chromosome Location	chr9:108031200-108031201
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:108024187..108026293-chr9:108029663..108031698,2	MCF-7	breast:
2	chr9:107510019..107512107-chr9:108029800..108031604,2	MCF-7	breast:
3	chr9:108029737..108031595-chr9:108037318..108040481,4	MCF-7	breast:
4	chr9:108006609..108008934-chr9:108030519..108032147,2	MCF-7	breast:
5	chr9:108030805..108032882-chr9:108043664..108045909,2	MCF-7	breast:
6	chr9:108031080..108034047-chr9:108034586..108036171,2	K562	blood:

Variant related genes	Relation type
ENSG00000070214	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12341869	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28688962	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57877883	1.00[AMR][1000 genomes]
rs59290851	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6479300	1.00[AFR][1000 genomes]
rs6479301	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6479302	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6479303	0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6479304	0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7024012	0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7026389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7033929	0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7039638	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7046185	0.95[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7048497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72744219	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72744225	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73510211	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510289	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73510295	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73666622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73666624	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73666625	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7847744	0.90[YRI][hapmap];0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7847952	0.94[AFR][1000 genomes]
rs7853038	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7853709	0.83[AMR][1000 genomes]
rs7854064	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7854282	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7857088	0.85[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7860356	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7869261	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7873924	0.86[YRI][hapmap];0.83[AMR][1000 genomes]
rs9777083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv831678	chr9:107923522-108112813	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv893685	chr9:107940737-108083485	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv893686	chr9:107968330-108083485	Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv893687	chr9:107973277-108083485	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv893688	chr9:107974761-108083485	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv893689	chr9:107978563-108130606	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv893690	chr9:107992706-108083485	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108008200-108033600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:108009000-108037200	Weak transcription	Aorta	Aorta
3	chr9:108011600-108031800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr9:108017200-108040800	Weak transcription	HMEC	breast
5	chr9:108020800-108031200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:108020800-108040000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:108021400-108039200	Weak transcription	Pancreas	Pancrea
8	chr9:108021400-108042600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:108021600-108031800	Weak transcription	Psoas Muscle	Psoas
10	chr9:108021600-108043200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:108022400-108053600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:108022600-108033000	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr9:108022800-108032000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:108022800-108033200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr9:108022800-108041000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr9:108022800-108042400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr9:108022800-108046000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr9:108023000-108043200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr9:108023200-108031800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:108023600-108045200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:108023800-108034400	Weak transcription	Fetal Intestine Large	intestine
22	chr9:108024000-108032000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:108025200-108042400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:108025600-108031600	Weak transcription	Brain Angular Gyrus	brain
25	chr9:108025600-108032000	Weak transcription	Colon Smooth Muscle	Colon
26	chr9:108025600-108034600	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr9:108026800-108031800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr9:108026800-108032000	Weak transcription	Left Ventricle	heart
29	chr9:108027000-108034600	Weak transcription	Fetal Intestine Small	intestine
30	chr9:108027000-108039800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr9:108027200-108031800	Weak transcription	HepG2	liver
32	chr9:108027200-108051000	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr9:108028400-108036000	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr9:108028400-108053000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr9:108029200-108033800	Enhancers	Brain Anterior Caudate	brain
36	chr9:108030000-108045200	Enhancers	Brain Hippocampus Middle	brain
37	chr9:108030200-108034000	Enhancers	Brain Substantia Nigra	brain
38	chr9:108030600-108031800	Weak transcription	Stomach Mucosa	stomach
39	chr9:108030600-108032000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr9:108030600-108032200	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr9:108030600-108032400	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr9:108030600-108032800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr9:108030800-108031200	Active TSS	Liver	Liver
44	chr9:108030800-108032000	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr9:108030800-108032000	Weak transcription	Brain Cingulate Gyrus	brain
46	chr9:108030800-108033600	Enhancers	Brain Inferior Temporal Lobe	brain
47	chr9:108031200-108031800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:108031200-108045200	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links