Variant report

Variant	rs3024798
Chromosome Location	chr2:85894308-85894309
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:85886996..85889867-chr2:85891019..85894482,4	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12714149	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2077079	0.82[EUR][1000 genomes]
rs4616480	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs934773	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs934774	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874459	chr2:85828014-85939207	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv874460	chr2:85828014-85941074	Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv874461	chr2:85853653-85939207	Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv874462	chr2:85853653-85941074	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv874463	chr2:85853653-85946708	Strong transcription Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv874464	chr2:85886175-85898898	Enhancers Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv3436261	chr2:85892291-85894789	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:85876600-85895400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:85879600-85896000	Weak transcription	GM12878-XiMat	blood
3	chr2:85881800-85895800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:85883600-85900000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr2:85884800-85895600	Weak transcription	Primary B cells from cord blood	blood
6	chr2:85884800-85896600	Weak transcription	Primary B cells from peripheral blood	blood
7	chr2:85886400-85901000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr2:85887000-85896200	Weak transcription	Fetal Brain Female	brain
9	chr2:85887000-85905800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr2:85887200-85895200	Weak transcription	Fetal Thymus	thymus
11	chr2:85890200-85896400	Weak transcription	Pancreas	Pancrea
12	chr2:85890600-85895400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr2:85890800-85895000	Weak transcription	Osteobl	bone
14	chr2:85890800-85895200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr2:85890800-85895200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr2:85890800-85895200	Weak transcription	A549	lung
17	chr2:85890800-85895400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:85890800-85895600	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr2:85890800-85895800	Weak transcription	NH-A	brain
20	chr2:85891000-85905800	Weak transcription	Right Atrium	heart
21	chr2:85891200-85895000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr2:85891200-85895400	Weak transcription	NHDF-Ad	bronchial
23	chr2:85891400-85895400	Weak transcription	NHLF	lung
24	chr2:85892600-85894800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr2:85893000-85894800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr2:85893000-85899200	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr2:85893000-85903000	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr2:85893200-85896600	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr2:85893400-85894600	Enhancers	Spleen	Spleen
30	chr2:85893800-85894400	Enhancers	Placenta	Placenta
31	chr2:85893800-85895200	Active TSS	Fetal Lung	lung
32	chr2:85894000-85895400	Active TSS	Lung	lung
33	chr2:85894000-85905000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr2:85894200-85894400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
35	chr2:85894200-85895400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr2:85894200-85896200	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links