Variant report

Variant	rs11969506
Chromosome Location	chr6:24810854-24810855
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:24809223-24813228	K562	blood:	n/a	n/a
2	FOXA1	chr6:24810559-24811039	HepG2	liver:	n/a	chr6:24810878-24810890
3	FOXA1	chr6:24810818-24810995	A549	lung:	n/a	chr6:24810878-24810890
4	FOXA2	chr6:24810718-24810993	HepG2	liver:	n/a	chr6:24810878-24810890

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:24720760..24722445-chr6:24809512..24811592,2	K562	blood:

Variant related genes	Relation type
FAM65B	TF binding region
ENSG00000112308	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11961640	1.00[CEU][hapmap];0.91[YRI][hapmap]
rs11962939	0.82[AFR][1000 genomes]
rs11962982	0.82[AFR][1000 genomes]
rs11967997	0.82[AFR][1000 genomes]
rs11968283	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs11968286	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs11968340	0.80[YRI][hapmap]
rs35254980	0.82[AFR][1000 genomes]
rs35698586	0.82[AFR][1000 genomes]
rs61741706	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6918210	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv5227	chr6:24774149-24824012	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv508396	chr6:24779648-24846309	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
6	esv3526381	chr6:24810723-24819196	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24777000-24811600	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:24777000-24847600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:24777000-24859600	Weak transcription	Psoas Muscle	Psoas
4	chr6:24788000-24832000	Weak transcription	Brain Substantia Nigra	brain
5	chr6:24788800-24848200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:24789200-24842600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:24798200-24827400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:24798200-24841200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:24800000-24843200	Weak transcription	Liver	Liver
10	chr6:24800400-24821800	Weak transcription	Fetal Heart	heart
11	chr6:24800800-24811800	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr6:24800800-24811800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:24801000-24812000	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr6:24801200-24811800	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr6:24801200-24812000	Strong transcription	Primary B cells from peripheral blood	blood
16	chr6:24801400-24811800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:24801600-24811200	Strong transcription	Primary T cells from cord blood	blood
18	chr6:24802000-24811000	Strong transcription	Primary hematopoietic stem cells	blood
19	chr6:24802000-24811000	Strong transcription	Fetal Thymus	thymus
20	chr6:24802000-24811600	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr6:24802000-24811800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr6:24802000-24811800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:24802000-24812000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:24802400-24811600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
25	chr6:24802400-24811600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr6:24802400-24811800	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr6:24802400-24811800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:24802600-24812000	Strong transcription	Primary T helper cells fromperipheralblood	blood
29	chr6:24802600-24834200	Weak transcription	HSMM	muscle
30	chr6:24802800-24827400	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr6:24803200-24811000	Strong transcription	HSMMtube	muscle
32	chr6:24803400-24817800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr6:24803400-24827400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:24804800-24811200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr6:24804800-24858200	Weak transcription	Gastric	stomach
36	chr6:24805000-24811400	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr6:24805000-24811400	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr6:24805000-24812000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr6:24806200-24842400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr6:24806400-24811200	Strong transcription	Brain Anterior Caudate	brain
41	chr6:24808400-24817800	Weak transcription	Dnd41	blood
42	chr6:24808600-24823400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:24808800-24845600	Weak transcription	Fetal Stomach	stomach
44	chr6:24809000-24823200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr6:24809400-24811000	Enhancers	HepG2	liver
46	chr6:24809400-24811400	Strong transcription	Primary T killer memory cells from peripheral blood	blood
47	chr6:24809800-24820600	Weak transcription	Placenta	Placenta
48	chr6:24809800-24827400	Weak transcription	GM12878-XiMat	blood
49	chr6:24809800-24839200	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr6:24810000-24818600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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