Variant report

Variant	rs11638448
Chromosome Location	chr15:52552221-52552222
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52551261..52553403-chr15:52570107..52572237,2	MCF-7	breast:
2	chr15:52541572..52560373-chr15:52569752..52591000,64	MCF-7	breast:
3	chr15:52551438..52553868-chr15:52559425..52562079,2	K562	blood:
4	chr15:52536664..52559220-chr15:52576974..52590204,72	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128833	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs3751629	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4257157	1.00[CEU][hapmap];0.87[CHB][hapmap];0.80[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4608282	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4776030	0.88[CEU][hapmap];0.90[EUR][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	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52524400-52579400	Weak transcription	Small Intestine	intestine
2	chr15:52525800-52554000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr15:52536200-52553600	Weak transcription	Lung	lung
4	chr15:52536200-52553800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr15:52538000-52554600	Weak transcription	Colonic Mucosa	Colon
6	chr15:52539600-52553400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr15:52540000-52553800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:52542400-52553800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr15:52543600-52555400	Weak transcription	Liver	Liver
10	chr15:52546800-52553600	Weak transcription	Spleen	Spleen
11	chr15:52546800-52553800	Weak transcription	Esophagus	oesophagus
12	chr15:52547000-52553400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:52547000-52555800	Weak transcription	Fetal Intestine Large	intestine
14	chr15:52547600-52553800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:52547800-52553400	Weak transcription	HMEC	breast
16	chr15:52549000-52553200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr15:52549000-52553400	Weak transcription	Primary B cells from cord blood	blood
18	chr15:52549000-52553800	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr15:52549000-52557800	Weak transcription	Fetal Brain Male	brain
20	chr15:52549200-52552400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr15:52549200-52553600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr15:52549200-52553600	Weak transcription	Stomach Mucosa	stomach
23	chr15:52549200-52553600	Weak transcription	HUVEC	blood vessel
24	chr15:52549200-52553800	Weak transcription	Colon Smooth Muscle	Colon
25	chr15:52549200-52554000	Weak transcription	Brain Hippocampus Middle	brain
26	chr15:52549400-52553000	Weak transcription	Primary B cells from peripheral blood	blood
27	chr15:52549400-52553200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr15:52549400-52553400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr15:52549400-52553400	Weak transcription	GM12878-XiMat	blood
30	chr15:52549400-52554000	Weak transcription	Fetal Lung	lung
31	chr15:52549400-52567200	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr15:52549600-52553200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr15:52549600-52553200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr15:52549600-52553400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr15:52549600-52553400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr15:52549600-52553600	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr15:52549600-52553600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr15:52549600-52553600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr15:52549600-52553600	Weak transcription	Brain Anterior Caudate	brain
40	chr15:52549600-52553600	Weak transcription	Dnd41	blood
41	chr15:52549600-52553800	Weak transcription	Primary hematopoietic stem cells	blood
42	chr15:52549600-52553800	Weak transcription	Duodenum Mucosa	Duodenum
43	chr15:52549600-52557400	Weak transcription	Thymus	Thymus
44	chr15:52549800-52553000	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr15:52549800-52553400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr15:52549800-52553400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:52549800-52553400	Weak transcription	Brain Angular Gyrus	brain
48	chr15:52549800-52553800	Weak transcription	Primary T cells from cord blood	blood
49	chr15:52549800-52554200	Weak transcription	A549	lung
50	chr15:52550000-52552800	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links