Variant report

Variant	rs1408135
Chromosome Location	chr9:110032384-110032385
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110030231..110032782-chr9:110035060..110038842,3	MCF-7	breast:
2	chr9:110021549..110024530-chr9:110031690..110034147,2	MCF-7	breast:
3	chr9:110030757..110033354-chr9:110044206..110047003,3	MCF-7	breast:
4	chr9:110031224..110033017-chr9:110046490..110048325,2	K562	blood:
5	chr9:110007873..110010290-chr9:110031092..110033178,2	K562	blood:

Variant related genes	Relation type
ENSG00000119318	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10521083	0.95[CHB][hapmap]
rs10732368	0.95[CHB][hapmap]
rs10739232	0.94[CHB][hapmap]
rs10739234	0.95[CHB][hapmap]
rs10739237	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10739238	0.95[CHB][hapmap]
rs10759219	0.89[CHB][hapmap]
rs10759222	0.95[CHB][hapmap]
rs10759225	1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10759227	0.81[ASN][1000 genomes]
rs10816475	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs10816492	1.00[CHB][hapmap];0.80[YRI][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10978767	0.84[CHB][hapmap]
rs10978770	0.89[CHB][hapmap]
rs1323806	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs1323808	0.95[CHB][hapmap]
rs1323809	1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1535765	0.95[CHB][hapmap]
rs1535766	0.89[CHB][hapmap]
rs1805332	0.95[CHB][hapmap]
rs1805334	0.95[CHB][hapmap]
rs1805335	0.89[CHB][hapmap]
rs1886134	0.95[CHB][hapmap]
rs2147072	0.95[CHB][hapmap]
rs2417785	0.95[CHB][hapmap]
rs4278207	0.95[CHB][hapmap]
rs4978764	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs4978849	0.94[CHB][hapmap]
rs7029997	0.95[CHB][hapmap]
rs7030169	0.95[CHB][hapmap]
rs7031906	0.95[CHB][hapmap]
rs7035611	0.95[CHB][hapmap]
rs7038737	0.94[CHB][hapmap]
rs7041497	0.95[CHB][hapmap]
rs7046950	0.95[CHB][hapmap]
rs7852295	0.89[CHB][hapmap]
rs7866312	0.89[CHB][hapmap]
rs7866353	0.90[CHB][hapmap]
rs7866797	0.89[CHB][hapmap]
rs7867544	0.84[CHB][hapmap]
rs942292	0.89[CHB][hapmap]
rs942293	0.95[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893698	chr9:109998563-110052660	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv508560	chr9:110006490-110060539	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110028200-110032800	Weak transcription	Pancreas	Pancrea
2	chr9:110029400-110032800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr9:110029400-110035800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:110031400-110033400	Enhancers	Adipose Nuclei	Adipose
5	chr9:110031600-110032400	Enhancers	Fetal Kidney	kidney
6	chr9:110031600-110032600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr9:110031600-110033000	Enhancers	Muscle Satellite Cultured Cells	--
8	chr9:110031600-110033000	Enhancers	Fetal Intestine Small	intestine
9	chr9:110031600-110033200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr9:110031600-110033200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr9:110031600-110033200	Enhancers	Fetal Intestine Large	intestine
12	chr9:110031600-110033200	Enhancers	Placenta	Placenta
13	chr9:110031600-110033200	Enhancers	Ovary	ovary
14	chr9:110031600-110033200	Enhancers	HSMMtube	muscle
15	chr9:110031600-110033200	Enhancers	NHLF	lung
16	chr9:110031600-110033200	Enhancers	Osteobl	bone
17	chr9:110031600-110033400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:110031600-110033400	Enhancers	HMEC	breast
19	chr9:110031600-110033400	Enhancers	NHDF-Ad	bronchial
20	chr9:110031800-110032600	Enhancers	Liver	Liver
21	chr9:110031800-110032600	Weak transcription	HSMM	muscle
22	chr9:110031800-110033000	Flanking Active TSS	A549	lung
23	chr9:110031800-110033000	Flanking Active TSS	HepG2	liver
24	chr9:110031800-110033200	Enhancers	Fetal Lung	lung
25	chr9:110031800-110033200	Enhancers	Hela-S3	cervix
26	chr9:110032000-110033400	Enhancers	Stomach Mucosa	stomach
27	chr9:110032200-110032600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr9:110032200-110033000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr9:110032200-110033000	Enhancers	Duodenum Mucosa	Duodenum
30	chr9:110032200-110033200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links