Variant report

Variant	rs9296980
Chromosome Location	chr6:15532594-15532595
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs1018381	0.94[EUR][1000 genomes]
rs1018382	0.94[EUR][1000 genomes]
rs1040410	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10949305	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11752196	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11752598	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11753919	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11755055	0.82[CEU][hapmap];0.82[CHB][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.84[TSI][hapmap];0.94[EUR][1000 genomes]
rs11757499	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11759609	0.92[EUR][1000 genomes]
rs13437303	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16876554	0.82[CEU][hapmap];0.84[TSI][hapmap]
rs16876555	0.82[CEU][hapmap];0.84[TSI][hapmap]
rs16876671	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2064099	0.82[MEX][hapmap]
rs2076058	0.82[CEU][hapmap]
rs2205852	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2237110	0.82[CEU][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap]
rs2619516	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2619519	0.94[EUR][1000 genomes]
rs2619521	0.86[JPT][hapmap]
rs2619522	0.88[JPT][hapmap]
rs2619526	0.94[EUR][1000 genomes]
rs2619528	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs2619529	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2619530	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2619533	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2619534	0.82[AMR][1000 genomes]
rs2619535	0.94[EUR][1000 genomes]
rs2619540	0.94[EUR][1000 genomes]
rs2619541	0.94[EUR][1000 genomes]
rs2619544	0.94[EUR][1000 genomes]
rs2619545	0.88[JPT][hapmap]
rs2619546	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2619548	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2619552	0.90[EUR][1000 genomes]
rs2743548	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2743549	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2743550	0.82[CEU][hapmap];0.82[CHB][hapmap];0.94[EUR][1000 genomes]
rs2743551	0.82[AMR][1000 genomes]
rs2743552	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2743553	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2743853	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2743854	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes]
rs2743857	0.88[JPT][hapmap]
rs2743858	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2743859	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2743860	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2743861	0.82[CEU][hapmap];0.82[CHB][hapmap];0.89[GIH][hapmap];0.88[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2743864	0.94[EUR][1000 genomes]
rs2743865	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes]
rs2743866	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes]
rs2743867	0.82[CEU][hapmap];0.82[CHB][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap];0.94[EUR][1000 genomes]
rs2743869	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes]
rs2743870	0.94[EUR][1000 genomes]
rs2743871	0.94[EUR][1000 genomes]
rs2743872	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2769563	0.82[MEX][hapmap]
rs3778651	1.00[CEU][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.80[AMR][1000 genomes]
rs734129	0.82[CEU][hapmap];0.82[CHB][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.91[TSI][hapmap];0.94[EUR][1000 genomes]
rs742206	0.82[MEX][hapmap]
rs760761	0.88[JPT][hapmap]
rs7752070	0.94[EUR][1000 genomes]
rs7770921	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs875463	0.82[CEU][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.91[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9296975	1.00[CEU][hapmap];0.90[MEX][hapmap];0.84[TSI][hapmap]
rs9296976	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9296977	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9296978	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9296979	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9296981	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9296984	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes]
rs9296985	0.82[CEU][hapmap];0.82[CHB][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.91[TSI][hapmap];0.96[EUR][1000 genomes]
rs9296987	0.94[EUR][1000 genomes]
rs9296988	0.94[EUR][1000 genomes]
rs9464792	0.82[MEX][hapmap]
rs9464793	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9464794	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9464795	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9464797	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9464801	0.94[EUR][1000 genomes]
rs9464802	0.94[EUR][1000 genomes]
rs9464803	0.93[YRI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9464805	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9464807	0.94[EUR][1000 genomes]
rs9476835	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9476836	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9476837	0.82[CEU][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9476838	0.82[CEU][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9476839	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9476840	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9476841	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9476842	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9476844	0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9476845	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9476846	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9476849	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9476854	0.89[EUR][1000 genomes]
rs9476858	0.82[CEU][hapmap];0.82[CHB][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.91[TSI][hapmap];0.94[EUR][1000 genomes]
rs9476859	0.82[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes]
rs9476860	0.94[EUR][1000 genomes]
rs9476863	0.82[CEU][hapmap];0.85[JPT][hapmap];0.94[EUR][1000 genomes]
rs9476865	0.86[EUR][1000 genomes]
rs9476866	0.94[EUR][1000 genomes]
rs9476867	0.94[EUR][1000 genomes]
rs9476868	0.94[EUR][1000 genomes]
rs9476869	0.94[EUR][1000 genomes]
rs9476883	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9654600	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv522265	chr6:15494177-15546213	ZNF genes & repeats Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv428473	chr6:15522653-15595739	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15507000-15533200	Weak transcription	HSMM	muscle
2	chr6:15512600-15536400	Weak transcription	Psoas Muscle	Psoas
3	chr6:15515800-15533600	Strong transcription	Thymus	Thymus
4	chr6:15519400-15534200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:15523000-15533800	Strong transcription	Primary T cells fromperipheralblood	blood
6	chr6:15523400-15534000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
7	chr6:15523400-15534400	Weak transcription	HUVEC	blood vessel
8	chr6:15523600-15535800	Weak transcription	Small Intestine	intestine
9	chr6:15523600-15540000	Weak transcription	NHEK	skin
10	chr6:15523800-15533400	Weak transcription	HMEC	breast
11	chr6:15523800-15534200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr6:15524200-15535800	Weak transcription	Stomach Mucosa	stomach
13	chr6:15524400-15533800	Weak transcription	NHDF-Ad	bronchial
14	chr6:15524400-15535400	Weak transcription	A549	lung
15	chr6:15524400-15549400	Weak transcription	Hela-S3	cervix
16	chr6:15524600-15536600	Weak transcription	Right Ventricle	heart
17	chr6:15524800-15533800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:15524800-15534200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr6:15524800-15536600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:15524800-15549800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr6:15525000-15532800	Weak transcription	Fetal Brain Female	brain
22	chr6:15525000-15534000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr6:15525000-15534000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr6:15525000-15536000	Weak transcription	NHLF	lung
25	chr6:15525000-15536400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr6:15525000-15536600	Weak transcription	Colonic Mucosa	Colon
27	chr6:15525000-15539000	Weak transcription	Brain Angular Gyrus	brain
28	chr6:15525000-15553400	Weak transcription	Ovary	ovary
29	chr6:15525200-15533400	Weak transcription	Placenta	Placenta
30	chr6:15525200-15536400	Weak transcription	Adipose Nuclei	Adipose
31	chr6:15525400-15539000	Weak transcription	Brain Cingulate Gyrus	brain
32	chr6:15525800-15533400	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr6:15527000-15533400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:15527000-15535400	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr6:15527200-15541400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr6:15527800-15534200	Strong transcription	Primary B cells from peripheral blood	blood
37	chr6:15528000-15534400	Strong transcription	Dnd41	blood
38	chr6:15528000-15534400	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr6:15528200-15532800	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:15528400-15533600	Strong transcription	Fetal Muscle Trunk	muscle
41	chr6:15528400-15547400	Weak transcription	Fetal Kidney	kidney
42	chr6:15528600-15532600	Strong transcription	Fetal Thymus	thymus
43	chr6:15528600-15533800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr6:15528600-15534000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr6:15528600-15543600	Weak transcription	GM12878-XiMat	blood
46	chr6:15528600-15546800	Weak transcription	Fetal Lung	lung
47	chr6:15528800-15534000	Strong transcription	Fetal Muscle Leg	muscle
48	chr6:15528800-15534200	Strong transcription	Primary monocytes fromperipheralblood	blood
49	chr6:15529000-15532800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr6:15529000-15533000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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