Variant report

Variant	rs2864836
Chromosome Location	chr11:46564091-46564092
allele	C/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:46562765..46566265-chr11:46568063..46569791,3	MCF-7	breast:
2	chr11:46557169..46561355-chr11:46561734..46565230,5	K562	blood:
3	chr11:46563592..46566187-chr11:46570531..46572350,2	MCF-7	breast:
4	chr11:46409177..46411497-chr11:46563543..46566290,2	K562	blood:
5	chr11:46562855..46564565-chr11:46637755..46639549,2	MCF-7	breast:
6	chr11:46388364..46390946-chr11:46563614..46565131,2	K562	blood:
7	chr11:46562436..46565305-chr11:46638338..46640636,3	MCF-7	breast:
8	chr11:46563239..46564906-chr11:46636934..46638500,2	K562	blood:
9	chr11:46563281..46564241-chr11:46638866..46639950,9	MCF-7	breast:
10	chr11:46563603..46565464-chr11:46572756..46575750,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000175224	Chromatin interaction
ENSG00000110497	Chromatin interaction
ENSG00000180423	Chromatin interaction
ENSG00000149091	Chromatin interaction

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10734546	0.80[AFR][1000 genomes]
rs11038924	0.85[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12099188	1.00[AFR][1000 genomes]
rs1466634	1.00[YRI][hapmap]
rs1489189	1.00[YRI][hapmap]
rs1489190	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs1489193	1.00[YRI][hapmap]
rs1873129	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs2029378	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs2046766	0.80[AFR][1000 genomes]
rs2046767	0.80[AFR][1000 genomes]
rs2087360	0.87[LWK][hapmap];1.00[YRI][hapmap]
rs2087361	0.80[AFR][1000 genomes]
rs2864071	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs34217002	1.00[AFR][1000 genomes]
rs34444424	0.80[AFR][1000 genomes]
rs35715394	0.80[AFR][1000 genomes]
rs35935319	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs4376875	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs4433539	0.80[AFR][1000 genomes]
rs4508179	0.80[AFR][1000 genomes]
rs4550197	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs57328824	0.91[AFR][1000 genomes]
rs57923752	1.00[AFR][1000 genomes]
rs58314136	0.80[AFR][1000 genomes]
rs58770070	1.00[AFR][1000 genomes]
rs59488332	0.95[AFR][1000 genomes]
rs59664414	0.95[AFR][1000 genomes]
rs60026983	1.00[AFR][1000 genomes]
rs60147143	1.00[AFR][1000 genomes]
rs61451984	0.80[AFR][1000 genomes]
rs61736849	0.86[AFR][1000 genomes]
rs6485681	1.00[LWK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs73449906	1.00[AFR][1000 genomes]
rs73449908	1.00[AFR][1000 genomes]
rs73449917	1.00[AFR][1000 genomes]
rs73449920	1.00[AFR][1000 genomes]
rs73449937	1.00[AFR][1000 genomes]
rs73449939	1.00[AFR][1000 genomes]
rs73449943	1.00[AFR][1000 genomes]
rs73449949	0.90[AFR][1000 genomes]
rs73449951	1.00[AFR][1000 genomes]
rs73449956	1.00[AFR][1000 genomes]
rs73449974	1.00[AFR][1000 genomes]
rs73449985	1.00[AFR][1000 genomes]
rs73450002	1.00[AFR][1000 genomes]
rs73451811	1.00[AFR][1000 genomes]
rs73451819	1.00[AFR][1000 genomes]
rs73451822	1.00[AFR][1000 genomes]
rs73451825	1.00[AFR][1000 genomes]
rs73451848	1.00[AFR][1000 genomes]
rs73451858	1.00[AFR][1000 genomes]
rs73451860	1.00[AFR][1000 genomes]
rs73451863	1.00[AFR][1000 genomes]
rs73451880	1.00[AFR][1000 genomes]
rs73451885	1.00[AFR][1000 genomes]
rs73451898	1.00[AFR][1000 genomes]
rs73451902	0.95[AFR][1000 genomes]
rs73466031	0.80[AFR][1000 genomes]
rs73466069	0.80[AFR][1000 genomes]
rs73466088	0.80[AFR][1000 genomes]
rs73466094	0.80[AFR][1000 genomes]
rs73466095	0.80[AFR][1000 genomes]
rs73466099	0.80[AFR][1000 genomes]
rs73467917	1.00[AFR][1000 genomes]
rs73467919	1.00[AFR][1000 genomes]
rs73467920	1.00[AFR][1000 genomes]
rs73467936	1.00[AFR][1000 genomes]
rs73467938	0.91[AFR][1000 genomes]
rs73467941	1.00[AFR][1000 genomes]
rs73467944	1.00[AFR][1000 genomes]
rs73467947	1.00[AFR][1000 genomes]
rs73467950	1.00[AFR][1000 genomes]
rs73467963	1.00[AFR][1000 genomes]
rs73467964	1.00[AFR][1000 genomes]
rs73467966	1.00[AFR][1000 genomes]
rs7928869	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs7942788	1.00[YRI][hapmap]
rs967754	1.00[YRI][hapmap];0.80[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044225	chr11:46472580-46771102	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv541030	chr11:46472580-46771102	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats 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	34 gene(s)	inside rSNPs	diseases
3	nsv1046990	chr11:46501436-46669636	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv541031	chr11:46501436-46669636	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv897321	chr11:46515902-46673344	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46559400-46575200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:46559400-46575400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr11:46559800-46565000	Weak transcription	Fetal Brain Male	brain
4	chr11:46560200-46569600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr11:46560200-46570000	Strong transcription	Fetal Muscle Trunk	muscle
6	chr11:46560400-46569400	Strong transcription	Fetal Intestine Large	intestine
7	chr11:46560400-46569600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr11:46560400-46570000	Strong transcription	GM12878-XiMat	blood
9	chr11:46560400-46570200	Strong transcription	Primary T cells from cord blood	blood
10	chr11:46560600-46569000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr11:46560600-46570000	Strong transcription	Dnd41	blood
12	chr11:46561000-46569000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr11:46561000-46569400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr11:46561000-46569600	Strong transcription	Placenta	Placenta
15	chr11:46561000-46570000	Strong transcription	HepG2	liver
16	chr11:46561000-46570200	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr11:46561200-46566000	Strong transcription	Colon Smooth Muscle	Colon
18	chr11:46561200-46569000	Strong transcription	Primary T killer memory cells from peripheral blood	blood
19	chr11:46561200-46569200	Strong transcription	Adipose Nuclei	Adipose
20	chr11:46561200-46569400	Strong transcription	Liver	Liver
21	chr11:46561200-46569800	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr11:46561200-46569800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr11:46561200-46570000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr11:46561200-46570600	Strong transcription	Primary B cells from cord blood	blood
25	chr11:46561400-46569800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr11:46561400-46570000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr11:46561400-46570000	Strong transcription	Sigmoid Colon	Sigmoid Colon
28	chr11:46561600-46569200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr11:46561600-46569200	Strong transcription	Fetal Brain Female	brain
30	chr11:46561600-46569400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr11:46561600-46569400	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr11:46561600-46569600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr11:46561600-46570000	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr11:46561600-46570000	Strong transcription	Primary T helper cells PMA-I stimulated	--
35	chr11:46561600-46570000	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr11:46561600-46570000	Strong transcription	Fetal Muscle Leg	muscle
37	chr11:46561600-46570400	Strong transcription	Fetal Thymus	thymus
38	chr11:46561800-46566000	Genic enhancers	K562	blood
39	chr11:46561800-46568200	Strong transcription	Fetal Kidney	kidney
40	chr11:46561800-46568800	Strong transcription	Brain Germinal Matrix	brain
41	chr11:46561800-46569200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr11:46561800-46569400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr11:46561800-46569400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr11:46561800-46569400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr11:46561800-46569600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr11:46561800-46569600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr11:46561800-46569800	Strong transcription	Primary hematopoietic stem cells	blood
48	chr11:46561800-46569800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr11:46561800-46569800	Strong transcription	Hela-S3	cervix
50	chr11:46561800-46570000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links