Variant report

Variant	rs2774622
Chromosome Location	chr9:17141748-17141749
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 145 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:137)

rs_ID	r²[population]
rs10465046	0.86[ASN][1000 genomes]
rs10511633	0.94[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10756867	0.84[CHB][hapmap]
rs10962908	0.80[AFR][1000 genomes]
rs10962909	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10962918	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10962922	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10962923	0.85[ASN][1000 genomes]
rs10962924	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10962925	0.82[ASN][1000 genomes]
rs10962926	0.80[ASN][1000 genomes]
rs10962927	0.80[ASN][1000 genomes]
rs10962928	0.82[ASN][1000 genomes]
rs10962932	0.81[ASN][1000 genomes]
rs10962933	0.81[ASN][1000 genomes]
rs10962938	0.81[ASN][1000 genomes]
rs10962939	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs10962940	0.81[ASN][1000 genomes]
rs10962941	0.81[ASN][1000 genomes]
rs10962942	0.81[ASN][1000 genomes]
rs1113379	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1113380	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap]
rs11525918	0.81[ASN][1000 genomes]
rs11531656	0.81[ASN][1000 genomes]
rs11534160	0.82[ASN][1000 genomes]
rs11560447	0.85[AFR][1000 genomes]
rs11562139	0.80[ASN][1000 genomes]
rs12000610	0.80[ASN][1000 genomes]
rs12235987	0.80[ASN][1000 genomes]
rs12236896	0.82[JPT][hapmap];0.93[YRI][hapmap];0.80[AFR][1000 genomes]
rs12237062	0.81[JPT][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes]
rs12237892	0.81[ASN][1000 genomes]
rs12238753	0.81[ASN][1000 genomes]
rs12346397	0.93[YRI][hapmap]
rs1413418	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1413419	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs1576958	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1576959	0.81[ASN][1000 genomes]
rs1582029	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs16935416	0.92[YRI][hapmap]
rs1759452	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759453	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759457	0.92[CHB][hapmap];0.93[JPT][hapmap];0.96[YRI][hapmap]
rs1759458	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759459	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759460	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759462	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759463	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1759464	0.85[CHB][hapmap];0.93[JPT][hapmap];0.92[YRI][hapmap]
rs1759465	0.94[CHB][hapmap];0.93[JPT][hapmap]
rs1759616	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1819484	0.81[ASN][1000 genomes]
rs1930639	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap]
rs1930641	0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap]
rs2039413	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2104915	0.81[EUR][1000 genomes]
rs2151289	0.84[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2183502	0.80[EUR][1000 genomes]
rs2483132	0.95[AFR][1000 genomes]
rs2774621	0.94[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2774623	0.95[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2774626	0.90[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2774628	0.95[AFR][1000 genomes]
rs2774629	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2779763	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2779766	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2779767	0.90[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2779771	0.94[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2779772	0.85[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2780204	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2780205	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2815173	0.94[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2815175	0.81[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs2815177	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2815181	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2815182	0.94[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3119847	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3119848	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3122360	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3808785	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs3814137	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs3814138	0.80[ASN][1000 genomes]
rs3814139	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4128606	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4147023	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs4289910	0.81[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes]
rs4430173	0.81[ASN][1000 genomes]
rs4621917	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs4961529	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4961534	0.84[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs585682	0.94[CHB][hapmap];0.87[JPT][hapmap]
rs600041	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs600133	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs601960	0.94[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap]
rs613966	0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap]
rs614412	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs614471	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs620280	0.92[YRI][hapmap]
rs632176	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs634383	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs634446	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs642582	0.94[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap]
rs646025	0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap]
rs647013	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs6475109	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475122	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs6475124	0.81[ASN][1000 genomes]
rs6475125	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs6475129	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs654521	0.84[CHB][hapmap]
rs664447	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs673587	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs679666	0.94[CHB][hapmap];0.93[JPT][hapmap]
rs7020918	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs7021738	0.85[ASN][1000 genomes]
rs7025912	0.82[ASN][1000 genomes]
rs7030801	0.85[AMR][1000 genomes]
rs7031133	0.83[JPT][hapmap]
rs7034768	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs7035318	0.81[ASN][1000 genomes]
rs7035386	0.81[ASN][1000 genomes]
rs7035525	1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs7037408	0.80[ASN][1000 genomes]
rs7040098	0.82[ASN][1000 genomes]
rs7040666	0.80[ASN][1000 genomes]
rs7043703	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs7044254	0.82[ASN][1000 genomes]
rs7044783	0.81[ASN][1000 genomes]
rs7046327	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs7046951	0.80[ASN][1000 genomes]
rs7850279	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7864296	0.84[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7868207	0.86[AFR][1000 genomes]
rs7870101	0.84[CHB][hapmap]
rs7870682	0.84[AMR][1000 genomes]
rs870270	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap]
rs9407787	0.89[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[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