Variant report

Variant	rs116500687
Chromosome Location	chr3:24547522-24547523
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24537125..24539078-chr3:24545572..24547994,2	MCF-7	breast:
2	chr3:24542552..24545017-chr3:24545304..24547564,2	MCF-7	breast:
3	chr3:24543533..24545427-chr3:24547333..24549545,2	K562	blood:
4	chr3:24535073..24541427-chr3:24545752..24549370,7	MCF-7	breast:
5	chr3:23986883..23988748-chr3:24547232..24549408,2	K562	blood:
6	chr3:24541351..24543279-chr3:24546883..24549843,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000272554	Chromatin interaction
ENSG00000151090	Chromatin interaction
ENSG00000228791	Chromatin interaction
ENSG00000174738	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1012975	chr3:24500706-24615644	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
5	esv3427623	chr3:24546484-24547989	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24538200-24552000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:24538200-24560600	Weak transcription	Aorta	Aorta
3	chr3:24538400-24549000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:24539000-24560200	Weak transcription	HepG2	liver
5	chr3:24540600-24549000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:24541000-24549000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr3:24542800-24548800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:24542800-24549400	Weak transcription	HSMM	muscle
9	chr3:24543800-24549200	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:24544200-24547800	Enhancers	Fetal Intestine Small	intestine
11	chr3:24544200-24548200	Enhancers	Primary B cells from peripheral blood	blood
12	chr3:24544800-24548600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr3:24544800-24549000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:24544800-24549000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:24545000-24548800	Weak transcription	NHEK	skin
16	chr3:24545000-24549000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:24545000-24549000	Weak transcription	HMEC	breast
18	chr3:24545800-24547800	Enhancers	Stomach Mucosa	stomach
19	chr3:24546000-24548600	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr3:24546000-24548800	Weak transcription	Primary monocytes fromperipheralblood	blood
21	chr3:24546400-24547600	Active TSS	Rectal Mucosa Donor 29	rectum
22	chr3:24546400-24547800	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr3:24546400-24550600	Enhancers	NHDF-Ad	bronchial
24	chr3:24546800-24547600	Enhancers	Small Intestine	intestine
25	chr3:24547000-24547800	Weak transcription	Primary B cells from cord blood	blood
26	chr3:24547000-24547800	Enhancers	Fetal Intestine Large	intestine
27	chr3:24547000-24548600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:24547000-24550600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:24547400-24547600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr3:24547400-24547600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
31	chr3:24547400-24547800	Enhancers	Duodenum Mucosa	Duodenum
32	chr3:24547400-24548000	Flanking Active TSS	K562	blood
33	chr3:24547400-24549600	Enhancers	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