Variant report

Variant	rs6499260
Chromosome Location	chr16:69864675-69864676
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11075734	0.87[ASW][hapmap];0.89[LWK][hapmap];0.86[YRI][hapmap]
rs11075738	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11075739	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11641899	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11643817	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11645565	0.84[EUR][1000 genomes]
rs12447095	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12447914	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16959200	0.89[YRI][hapmap]
rs2173714	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34378064	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3790085	0.91[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap];0.84[ASN][1000 genomes]
rs3790086	0.91[CHB][hapmap];0.83[JPT][hapmap];0.82[YRI][hapmap];0.84[ASN][1000 genomes]
rs4275849	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4341733	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4985374	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4985418	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4985445	0.97[ASN][1000 genomes]
rs4985446	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60941540	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62051384	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62051387	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62051389	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6499257	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs68039170	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7193221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7194806	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7196917	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs7200005	0.88[CEU][hapmap];0.80[MEX][hapmap];0.82[TSI][hapmap]
rs7202223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7206585	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8043925	0.84[TSI][hapmap]
rs8044920	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8052428	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs8057620	0.83[CHD][hapmap]
rs8059645	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8063219	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9630631	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv906823	chr16:69711533-69959223	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv1062171	chr16:69854267-70188585	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv542941	chr16:69854267-70188585	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
4	nsv1059249	chr16:69854467-70188446	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
5	nsv542942	chr16:69854467-70188446	Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
6	esv2758428	chr16:69855122-70313222	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
7	esv2758652	chr16:69855122-70313222	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 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	chr16:69823800-69874800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr16:69830600-69867000	Weak transcription	Right Ventricle	heart
3	chr16:69833800-69874600	Weak transcription	Dnd41	blood
4	chr16:69833800-69875600	Weak transcription	NHEK	skin
5	chr16:69834000-69910600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr16:69834200-69892200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr16:69836400-69867400	Weak transcription	Colonic Mucosa	Colon
8	chr16:69837000-69905600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr16:69838600-69873000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr16:69838800-69874400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr16:69846600-69874400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr16:69846600-69875200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr16:69852000-69893200	Weak transcription	K562	blood
14	chr16:69853000-69867600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr16:69853200-69864800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr16:69853200-69867200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr16:69853200-69875000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr16:69853200-69878400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr16:69853400-69867000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr16:69853400-69867200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr16:69853400-69867200	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr16:69853400-69867400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr16:69853400-69880000	Weak transcription	Hela-S3	cervix
24	chr16:69853600-69867200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr16:69855200-69867200	Weak transcription	HSMMtube	muscle
26	chr16:69855200-69873800	Weak transcription	HMEC	breast
27	chr16:69855200-69875600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr16:69855400-69867200	Weak transcription	Placenta	Placenta
29	chr16:69855400-69867600	Weak transcription	Gastric	stomach
30	chr16:69855400-69874800	Weak transcription	Brain Germinal Matrix	brain
31	chr16:69855600-69864800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr16:69855600-69865200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr16:69855600-69867000	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr16:69855600-69867000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr16:69855600-69867200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr16:69855600-69867200	Weak transcription	HSMM	muscle
37	chr16:69855600-69868800	Weak transcription	Fetal Brain Male	brain
38	chr16:69855600-69877000	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr16:69856200-69875200	Weak transcription	Fetal Brain Female	brain
40	chr16:69858200-69864800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr16:69858200-69867200	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr16:69858400-69873800	Weak transcription	Primary hematopoietic stem cells	blood
43	chr16:69858600-69868800	Weak transcription	GM12878-XiMat	blood
44	chr16:69858600-69873800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr16:69858800-69867000	Weak transcription	Fetal Muscle Trunk	muscle
46	chr16:69859000-69867000	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr16:69861000-69865400	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr16:69861200-69864800	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr16:69861400-69865000	Strong transcription	Primary B cells from cord blood	blood
50	chr16:69861400-69865000	Strong transcription	Primary B cells from peripheral blood	blood

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