Variant report

Variant	rs11896415
Chromosome Location	chr2:148930370-148930371
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11889600	1.00[AFR][1000 genomes]
rs11890873	1.00[AFR][1000 genomes]
rs11890992	1.00[AFR][1000 genomes]
rs11893036	1.00[AFR][1000 genomes]
rs11893064	1.00[AFR][1000 genomes]
rs11893214	0.92[AFR][1000 genomes]
rs11895063	1.00[AFR][1000 genomes]
rs11897066	1.00[AFR][1000 genomes]
rs11897102	1.00[AFR][1000 genomes]
rs11897174	1.00[AFR][1000 genomes]
rs11897510	1.00[AFR][1000 genomes]
rs11900225	1.00[AFR][1000 genomes]
rs11901857	1.00[AFR][1000 genomes]
rs11902579	0.83[AFR][1000 genomes]
rs16828153	0.88[AFR][1000 genomes]
rs16828168	0.88[AFR][1000 genomes]
rs16828203	1.00[AFR][1000 genomes]
rs16828224	0.96[AFR][1000 genomes]
rs16828247	1.00[AFR][1000 genomes]
rs16828258	1.00[AFR][1000 genomes]
rs16828267	1.00[AFR][1000 genomes]
rs16828282	1.00[AFR][1000 genomes]
rs16828285	1.00[AFR][1000 genomes]
rs16828326	1.00[AFR][1000 genomes]
rs16828336	1.00[AFR][1000 genomes]
rs16828345	1.00[AFR][1000 genomes]
rs16828347	1.00[AFR][1000 genomes]
rs16828356	1.00[AFR][1000 genomes]
rs16828367	1.00[AFR][1000 genomes]
rs16828385	1.00[AFR][1000 genomes]
rs16828407	1.00[AFR][1000 genomes]
rs17218861	0.88[AFR][1000 genomes]
rs17225193	0.88[AFR][1000 genomes]
rs35159623	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916286	chr2:148438001-148977722	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv529388	chr2:148471340-148934846	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1002358	chr2:148703807-148942372	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1007683	chr2:148717347-148942372	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv535971	chr2:148717347-148942372	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1000852	chr2:148730825-148934986	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv535972	chr2:148730825-148934986	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv916766	chr2:148743880-148955720	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1001339	chr2:148755022-149020866	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv535977	chr2:148755022-149020866	Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv869146	chr2:148787051-149060763	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv875276	chr2:148844369-148996824	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv1004431	chr2:148859099-149054114	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	nsv997674	chr2:148862630-148995570	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv1007998	chr2:148866051-148995570	Strong transcription ZNF genes & repeats Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv999952	chr2:148884787-148938697	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
17	nsv1009608	chr2:148897348-149133718	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:148906000-148937000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:148911400-148942400	Weak transcription	Ovary	ovary
3	chr2:148913000-148977600	Weak transcription	Aorta	Aorta
4	chr2:148913400-148930400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr2:148914800-148936000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr2:148915000-148937000	Weak transcription	Adipose Nuclei	Adipose
7	chr2:148916800-148938600	Weak transcription	Primary B cells from cord blood	blood
8	chr2:148917800-148937200	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr2:148918800-148938000	Weak transcription	Fetal Lung	lung
10	chr2:148919800-148945800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr2:148920000-148937000	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr2:148924200-148941800	Weak transcription	Brain Angular Gyrus	brain
13	chr2:148924400-148938000	Weak transcription	Fetal Kidney	kidney
14	chr2:148924400-148946400	Weak transcription	HSMMtube	muscle
15	chr2:148924600-148936400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr2:148924600-148946800	Weak transcription	Rectal Smooth Muscle	rectum
17	chr2:148925200-148959000	Weak transcription	Brain Hippocampus Middle	brain
18	chr2:148925400-148936200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr2:148926000-148938000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr2:148927000-148940400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr2:148927200-148942600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr2:148927400-148942000	Weak transcription	HMEC	breast
23	chr2:148928200-148930400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr2:148928200-148945400	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr2:148928400-148930600	Weak transcription	Spleen	Spleen
26	chr2:148928400-148943800	Weak transcription	Fetal Brain Female	brain
27	chr2:148928400-148944600	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr2:148928600-148993600	Weak transcription	HSMM	muscle
29	chr2:148928800-148945600	Weak transcription	Primary T cells from cord blood	blood
30	chr2:148929000-148937800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr2:148929400-148931000	ZNF genes & repeats	Fetal Stomach	stomach
32	chr2:148929400-148931200	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
33	chr2:148929400-148941000	Weak transcription	NHLF	lung
34	chr2:148929600-148931200	ZNF genes & repeats	Fetal Intestine Small	intestine
35	chr2:148929600-148944800	Weak transcription	Osteobl	bone
36	chr2:148929800-148930600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
37	chr2:148929800-148930600	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr2:148929800-148931000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr2:148929800-148944400	Weak transcription	Stomach Smooth Muscle	stomach
40	chr2:148929800-148960800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr2:148930000-148930400	Weak transcription	Thymus	Thymus
42	chr2:148930000-148930800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr2:148930000-148931000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
44	chr2:148930000-148931200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr2:148930000-148938000	Weak transcription	Left Ventricle	heart
46	chr2:148930200-148930800	Weak transcription	Pancreas	Pancrea

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