Variant report

Variant	rs2183502
Chromosome Location	chr9:17141204-17141205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10810738	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10962886	0.91[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10962897	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10962898	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10962904	0.91[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10962917	0.90[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.86[ASN][1000 genomes]
rs11562136	0.90[ASN][1000 genomes]
rs12003380	0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1576957	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1930594	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2210539	0.90[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2774621	0.80[EUR][1000 genomes]
rs2774622	0.80[EUR][1000 genomes]
rs2774626	0.81[CEU][hapmap]
rs2774629	0.80[AMR][1000 genomes]
rs2779761	0.95[CEU][hapmap];0.93[YRI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2779768	0.91[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2779769	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2779771	0.80[EUR][1000 genomes]
rs2779772	0.81[CEU][hapmap]
rs2815174	0.95[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.90[YRI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2815176	0.90[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2815177	0.84[AMR][1000 genomes]
rs2815179	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2815180	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2815182	0.80[AMR][1000 genomes]
rs2815183	0.91[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2815184	0.90[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4272490	0.85[ASN][1000 genomes]
rs4458955	0.90[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs4961531	0.95[CEU][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59047675	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6475113	0.90[CEU][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6475121	0.80[ASN][1000 genomes]
rs7028249	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7034418	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7039814	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7048983	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7854322	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7862706	0.91[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7862811	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7870682	0.81[JPT][hapmap]
rs9407788	0.95[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.97[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv2764141	chr9:16903446-17351711	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892657	chr9:17008137-17223492	Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv892658	chr9:17041557-17532840	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv1023525	chr9:17121773-17236072	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	nsv892659	chr9:17130360-17236376	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv892660	chr9:17134245-17269437	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv892661	chr9:17134245-17532840	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17135600-17144600	Weak transcription	Small Intestine	intestine
2	chr9:17135800-17154200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr9:17135800-17155200	Weak transcription	Spleen	Spleen
4	chr9:17136000-17147000	Weak transcription	Left Ventricle	heart
5	chr9:17136000-17155200	Weak transcription	Fetal Intestine Large	intestine
6	chr9:17136000-17161000	Weak transcription	Psoas Muscle	Psoas
7	chr9:17136200-17145000	Weak transcription	HSMM	muscle
8	chr9:17136200-17145600	Weak transcription	Fetal Muscle Leg	muscle
9	chr9:17136200-17146400	Weak transcription	Fetal Muscle Trunk	muscle
10	chr9:17136200-17148000	Weak transcription	Fetal Kidney	kidney
11	chr9:17136200-17148200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:17136200-17148200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr9:17136200-17148400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:17136200-17152600	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr9:17136200-17154600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr9:17136200-17155200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr9:17136200-17157600	Weak transcription	Fetal Thymus	thymus
18	chr9:17136200-17159200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr9:17136200-17159600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr9:17136400-17143200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:17136400-17143600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr9:17136400-17143600	Weak transcription	Primary hematopoietic stem cells	blood
23	chr9:17136400-17143600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr9:17136400-17145200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr9:17136400-17145400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:17136400-17145400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr9:17136400-17145400	Weak transcription	NHEK	skin
28	chr9:17136400-17145600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr9:17136400-17145600	Weak transcription	Adipose Nuclei	Adipose
30	chr9:17136400-17146600	Weak transcription	HUVEC	blood vessel
31	chr9:17136400-17148000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr9:17136400-17148000	Weak transcription	Osteobl	bone
33	chr9:17136400-17148200	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr9:17136400-17148400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr9:17136400-17151800	Weak transcription	NH-A	brain
36	chr9:17136400-17154800	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr9:17136400-17156600	Weak transcription	NHLF	lung
38	chr9:17136400-17159000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr9:17136400-17163800	Weak transcription	Colon Smooth Muscle	Colon
40	chr9:17136400-17164200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr9:17136600-17144800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr9:17136600-17146200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr9:17136600-17148400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr9:17136600-17154400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr9:17136600-17154800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr9:17136800-17143200	Weak transcription	Fetal Lung	lung
47	chr9:17136800-17143400	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr9:17136800-17145200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr9:17136800-17154000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr9:17136800-17159000	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links