Variant report

Variant	rs6456725
Chromosome Location	chr6:26470048-26470049
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:26467030..26468631-chr6:26469753..26471368,2	MCF-7	breast:
2	chr6:26420998..26423545-chr6:26468256..26470657,2	K562	blood:
3	chr6:26466421..26470294-chr6:26518422..26522122,3	K562	blood:
4	chr6:26467959..26470668-chr6:26470770..26473697,4	MCF-7	breast:
5	chr6:26469351..26470926-chr6:26472067..26474626,2	K562	blood:
6	chr6:26420100..26422498-chr6:26469157..26471386,2	K562	blood:
7	chr6:26432568..26435135-chr6:26469851..26472610,2	K562	blood:
8	chr6:26456463..26458175-chr6:26469301..26471348,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000228223	Chromatin interaction
ENSG00000112763	Chromatin interaction
ENSG00000199289	Chromatin interaction
ENSG00000124549	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1131936	1.00[JPT][hapmap]
rs11963680	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966630	0.89[ASN][1000 genomes]
rs12208788	1.00[JPT][hapmap]
rs13437008	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13437012	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437351	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13978	1.00[JPT][hapmap]
rs16891666	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs1804836	0.89[ASN][1000 genomes]
rs2281027	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2393650	0.82[ASN][1000 genomes]
rs3734541	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757141	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3757147	0.85[JPT][hapmap]
rs3846841	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs3846842	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3857549	1.00[JPT][hapmap]
rs3885849	0.89[ASN][1000 genomes]
rs4422619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4712986	1.00[JPT][hapmap]
rs4712988	0.89[ASN][1000 genomes]
rs58380352	0.92[ASN][1000 genomes]
rs59121933	0.89[ASN][1000 genomes]
rs59621581	0.96[ASN][1000 genomes]
rs6456720	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6456726	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456730	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901118	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6902081	1.00[JPT][hapmap]
rs6907857	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910849	1.00[JPT][hapmap]
rs6910871	1.00[JPT][hapmap]
rs6910921	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910993	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911470	1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs6911476	1.00[JPT][hapmap]
rs6929846	1.00[JPT][hapmap]
rs6935678	1.00[ASN][1000 genomes]
rs6941018	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72500814	0.89[ASN][1000 genomes]
rs7355	1.00[JPT][hapmap]
rs7356849	1.00[JPT][hapmap]
rs7356980	0.89[ASN][1000 genomes]
rs7356982	0.85[JPT][hapmap]
rs7751645	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7769926	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773913	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9104	1.00[JPT][hapmap]
rs9295692	1.00[JPT][hapmap]
rs9295700	1.00[JPT][hapmap]
rs9461247	0.89[ASN][1000 genomes]
rs9461252	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9461253	1.00[JPT][hapmap]
rs9461254	1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9461256	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467748	0.85[JPT][hapmap]
rs9467749	0.89[ASN][1000 genomes]
rs9467753	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9467755	0.89[ASN][1000 genomes]
rs9467756	1.00[ASN][1000 genomes]
rs9467757	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9467759	1.00[JPT][hapmap]
rs9467760	0.85[JPT][hapmap];0.83[AMR][1000 genomes]
rs9467761	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467762	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9467765	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467768	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467769	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467771	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467788	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9467803	1.00[JPT][hapmap]

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	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
4	nsv482729	chr6:26291011-26470898	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
5	nsv482836	chr6:26352883-26520964	Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv482407	chr6:26369320-26550148	Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
7	nsv1031238	chr6:26428314-26471596	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv1031938	chr6:26467182-26501897	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26459600-26470200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
2	chr6:26459600-26470400	Strong transcription	HUES6 Cell Line	embryonic stem cell
3	chr6:26460000-26470400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:26460000-26471400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:26460600-26470200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:26461400-26470200	Strong transcription	Fetal Thymus	thymus
7	chr6:26461600-26470200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:26461600-26470200	Strong transcription	Liver	Liver
9	chr6:26461600-26470400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:26461600-26470400	Strong transcription	Left Ventricle	heart
11	chr6:26461600-26471000	Strong transcription	Thymus	Thymus
12	chr6:26461600-26471200	Strong transcription	Fetal Intestine Small	intestine
13	chr6:26461600-26471600	Strong transcription	Fetal Stomach	stomach
14	chr6:26461600-26471600	Weak transcription	Right Atrium	heart
15	chr6:26462000-26470200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:26462000-26470400	Strong transcription	Fetal Muscle Trunk	muscle
17	chr6:26462000-26470800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:26462000-26471000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:26462000-26471200	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr6:26462000-26471200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr6:26462000-26471200	Strong transcription	Fetal Intestine Large	intestine
22	chr6:26462000-26471400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr6:26462000-26472000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:26462200-26471600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr6:26462400-26470200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:26462600-26470600	Strong transcription	Brain Germinal Matrix	brain
27	chr6:26462800-26470400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:26462800-26471200	Strong transcription	Lung	lung
29	chr6:26463000-26471000	Strong transcription	Stomach Smooth Muscle	stomach
30	chr6:26464000-26470200	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr6:26464600-26471600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:26464600-26471600	Weak transcription	Psoas Muscle	Psoas
33	chr6:26465600-26471400	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr6:26466000-26471000	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr6:26466400-26471600	Weak transcription	Fetal Brain Male	brain
36	chr6:26466600-26473800	Weak transcription	Fetal Heart	heart
37	chr6:26467200-26472800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr6:26467200-26473800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr6:26467400-26471600	Weak transcription	Fetal Kidney	kidney
40	chr6:26467400-26471600	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr6:26467600-26471600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr6:26468000-26471600	Weak transcription	Stomach Mucosa	stomach
43	chr6:26468400-26471600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr6:26468600-26471600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:26469000-26471600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr6:26469000-26473200	Weak transcription	Hela-S3	cervix
47	chr6:26469200-26471600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr6:26469200-26471600	Weak transcription	Colonic Mucosa	Colon
49	chr6:26469200-26472800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr6:26469400-26470400	Strong transcription	Primary monocytes fromperipheralblood	blood

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