Variant report

Variant	rs416792
Chromosome Location	chr9:98029954-98029955
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98028273..98031210-chr9:98078454..98080763,2	MCF-7	breast:
2	chr9:98026719..98030157-chr9:98032285..98035514,3	MCF-7	breast:
3	chr9:98028476..98030036-chr9:98035647..98037357,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000158169	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1045276	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs10491560	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs10761381	0.84[CHB][hapmap]
rs171417	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs184818	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs187172	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2282216	0.85[JPT][hapmap]
rs356666	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs356669	0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs356673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs356675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs356677	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs356678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs356679	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs356680	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs356682	1.00[CEU][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs356683	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs356684	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs356687	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs356688	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs356689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3780567	0.90[JPT][hapmap]
rs3824486	0.85[JPT][hapmap]
rs437511	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4647376	0.95[JPT][hapmap]
rs4647534	0.90[JPT][hapmap]
rs4744451	0.90[JPT][hapmap]
rs526189	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs540412	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs565293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs609324	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs657637	1.00[CEU][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7033633	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs944934	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][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	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98017600-98030800	Weak transcription	Fetal Stomach	stomach
2	chr9:98024200-98034600	Weak transcription	Esophagus	oesophagus
3	chr9:98025600-98030200	Weak transcription	HepG2	liver
4	chr9:98027000-98034200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:98027600-98030400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:98027600-98033800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:98027800-98030400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr9:98027800-98030600	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr9:98027800-98031200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr9:98027800-98031200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr9:98027800-98032400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr9:98028000-98031200	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:98028000-98031800	Weak transcription	Small Intestine	intestine
14	chr9:98028000-98032800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr9:98028200-98030800	Weak transcription	Fetal Lung	lung
16	chr9:98028200-98032600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr9:98028400-98031000	Weak transcription	Stomach Mucosa	stomach
18	chr9:98028400-98031400	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr9:98028400-98032400	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr9:98028400-98045400	Weak transcription	Gastric	stomach
21	chr9:98028800-98030400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr9:98028800-98031200	Weak transcription	Fetal Intestine Large	intestine
23	chr9:98028800-98031200	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr9:98029000-98031000	Weak transcription	Fetal Intestine Small	intestine
25	chr9:98029000-98031000	Weak transcription	A549	lung
26	chr9:98029200-98031200	Weak transcription	Liver	Liver
27	chr9:98029400-98030400	Enhancers	H1 Cell Line	embryonic stem cell
28	chr9:98029400-98031000	Weak transcription	Fetal Kidney	kidney
29	chr9:98029400-98031200	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr9:98029400-98038200	Weak transcription	Primary T cells from cord blood	blood
31	chr9:98029600-98030200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr9:98029600-98030200	Weak transcription	Pancreas	Pancrea
33	chr9:98029600-98030400	Enhancers	GM12878-XiMat	blood
34	chr9:98029600-98031800	Weak transcription	Duodenum Mucosa	Duodenum
35	chr9:98029800-98030800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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