Variant report

Variant	rs6921343
Chromosome Location	chr6:25311461-25311462
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25298383..25300116-chr6:25311036..25313925,3	MCF-7	breast:
2	chr6:25307442..25309429-chr6:25310773..25313440,2	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs12055697	0.80[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs16890366	1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.97[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1883393	0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs2143023	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2690042	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2744287	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4712904	0.80[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs4712905	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4712906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4712907	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55967593	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs55999195	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58191968	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60084615	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6456664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456666	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456668	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6903148	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906812	0.85[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6913606	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913886	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914439	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6914514	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914654	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6914798	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914930	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915270	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6917631	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6923529	0.96[ASN][1000 genomes]
rs6927238	0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6938281	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938594	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs730711	0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs73392399	0.96[ASN][1000 genomes]
rs73396126	0.90[ASN][1000 genomes]
rs7741580	0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7743750	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7746942	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746969	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755701	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756143	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7758529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7759796	0.90[CHB][hapmap];0.87[JPT][hapmap];0.83[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7759828	0.81[ASN][1000 genomes]
rs7759879	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7760067	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7760151	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7764111	0.90[CHB][hapmap];0.84[JPT][hapmap];0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9295654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9348671	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9356974	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9356975	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs9366616	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366617	0.82[AFR][1000 genomes]
rs9379752	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9379753	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9379754	1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap]
rs9393639	0.80[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9461132	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461134	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461135	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461136	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs999039	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]

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	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25290400-25313400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:25298000-25311800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:25301400-25313400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:25301600-25311600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:25302000-25312800	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:25302600-25312400	Weak transcription	Thymus	Thymus
7	chr6:25302800-25312200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:25303200-25311600	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:25303200-25314800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:25303400-25311600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:25303400-25315400	Weak transcription	Fetal Kidney	kidney
12	chr6:25303800-25311800	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr6:25303800-25312400	Weak transcription	Adipose Nuclei	Adipose
14	chr6:25304000-25311600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:25305000-25324400	Weak transcription	Left Ventricle	heart
16	chr6:25305400-25311600	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr6:25305600-25311600	Weak transcription	Fetal Lung	lung
18	chr6:25305600-25311800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:25306600-25311600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr6:25306600-25331400	Weak transcription	Spleen	Spleen
21	chr6:25306800-25311800	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr6:25308400-25311600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:25308600-25312600	Weak transcription	Fetal Heart	heart
24	chr6:25309200-25313400	Weak transcription	Ovary	ovary
25	chr6:25310000-25312400	Enhancers	Small Intestine	intestine
26	chr6:25310000-25312600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:25310200-25311800	Enhancers	A549	lung
28	chr6:25310200-25312200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:25310200-25313000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:25310200-25313600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:25310200-25313800	Enhancers	Fetal Intestine Large	intestine
32	chr6:25310200-25314200	Enhancers	Fetal Intestine Small	intestine
33	chr6:25310200-25316800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:25310400-25312000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:25310400-25312400	Enhancers	Muscle Satellite Cultured Cells	--
36	chr6:25310400-25312600	Enhancers	NHDF-Ad	bronchial
37	chr6:25310400-25312800	Enhancers	HMEC	breast
38	chr6:25310400-25313800	Enhancers	Duodenum Mucosa	Duodenum
39	chr6:25310400-25319400	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr6:25310600-25311600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr6:25310600-25311600	Weak transcription	HSMMtube	muscle
42	chr6:25310600-25311600	Weak transcription	NHLF	lung
43	chr6:25310600-25312000	Weak transcription	NH-A	brain
44	chr6:25310800-25311800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr6:25310800-25315000	Weak transcription	Brain Anterior Caudate	brain
46	chr6:25311000-25312000	Enhancers	Aorta	Aorta
47	chr6:25311000-25312200	Enhancers	Right Atrium	heart
48	chr6:25311000-25312800	Enhancers	NHEK	skin
49	chr6:25311200-25312000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr6:25311200-25312000	Enhancers	Lung	lung

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