Variant report

Variant	rs11919088
Chromosome Location	chr3:179164180-179164181
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	chr3:179161225..179166304-chr3:179166389..179169632,12	K562	blood:
2	chr3:179163919..179165877-chr3:179278956..179280935,2	K562	blood:
3	chr3:179163030..179165240-chr3:179245182..179246834,2	K562	blood:
4	chr3:179153947..179155981-chr3:179162913..179165675,2	K562	blood:
5	chr3:179051055..179053553-chr3:179163870..179166000,2	K562	blood:
6	chr3:179064128..179066854-chr3:179163383..179165944,2	K562	blood:
7	chr3:179164124..179164928-chr3:179276168..179277217,5	MCF-7	breast:
8	chr3:179163949..179165457-chr3:179276284..179277256,12	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000171109	Chromatin interaction
ENSG00000136518	Chromatin interaction
ENSG00000114450	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs73043435	0.83[AMR][1000 genomes]
rs7618506	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1002962	chr3:178943753-179224548	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv536815	chr3:178943753-179224548	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv1003021	chr3:178944806-179246179	Enhancers Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv1006584	chr3:178944822-179241429	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv471116	chr3:178968634-179252263	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
8	nsv592650	chr3:178968634-179252263	Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
9	nsv1010513	chr3:178976107-179196274	Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
10	nsv536816	chr3:178976107-179196274	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
11	nsv1003514	chr3:178990037-179177029	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179084000-179167200	Weak transcription	Fetal Brain Male	brain
2	chr3:179112000-179167200	Weak transcription	Fetal Kidney	kidney
3	chr3:179132800-179167000	Weak transcription	Hela-S3	cervix
4	chr3:179143200-179166800	Weak transcription	HSMM	muscle
5	chr3:179143200-179167000	Weak transcription	HSMMtube	muscle
6	chr3:179143200-179167200	Weak transcription	Fetal Brain Female	brain
7	chr3:179143200-179168200	Weak transcription	Esophagus	oesophagus
8	chr3:179143400-179165600	Weak transcription	Fetal Intestine Small	intestine
9	chr3:179143400-179167000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr3:179143600-179166800	Weak transcription	Brain Germinal Matrix	brain
11	chr3:179143800-179167000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:179148000-179164400	Weak transcription	Fetal Heart	heart
13	chr3:179150800-179164400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:179150800-179166200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:179150800-179166800	Weak transcription	Fetal Lung	lung
16	chr3:179150800-179167600	Weak transcription	Placenta	Placenta
17	chr3:179151400-179165000	Weak transcription	Fetal Muscle Leg	muscle
18	chr3:179151400-179166800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:179151600-179165600	Weak transcription	NHDF-Ad	bronchial
20	chr3:179152000-179165600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:179152000-179166800	Weak transcription	NHLF	lung
22	chr3:179152400-179166600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr3:179152600-179165000	Weak transcription	Right Atrium	heart
24	chr3:179152800-179168600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:179155000-179166600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:179156800-179164400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:179156800-179164600	Weak transcription	Lung	lung
28	chr3:179157000-179164200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr3:179157000-179165000	Weak transcription	Fetal Thymus	thymus
30	chr3:179157200-179166600	Weak transcription	Primary hematopoietic stem cells	blood
31	chr3:179157400-179164600	Weak transcription	Fetal Stomach	stomach
32	chr3:179157400-179164800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr3:179157400-179165600	Weak transcription	Left Ventricle	heart
34	chr3:179157400-179167000	Weak transcription	Right Ventricle	heart
35	chr3:179157600-179164400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr3:179158000-179165600	Weak transcription	K562	blood
37	chr3:179158200-179165800	Weak transcription	Primary B cells from peripheral blood	blood
38	chr3:179159000-179166600	Weak transcription	Primary B cells from cord blood	blood
39	chr3:179160600-179168600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr3:179161000-179167000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr3:179161400-179166800	Weak transcription	Primary monocytes fromperipheralblood	blood
42	chr3:179161400-179167000	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr3:179161600-179167000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr3:179162200-179164200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr3:179162400-179167000	Weak transcription	NH-A	brain
46	chr3:179162600-179164600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr3:179162600-179164600	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr3:179162600-179164600	Weak transcription	NHEK	skin
49	chr3:179162600-179164800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:179162600-179166800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links