Variant report

Variant	rs28898581
Chromosome Location	chr2:234608019-234608020
allele	A/G
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	chr2:234394239..234398905-chr2:234606921..234610330,8	MCF-7	breast:
2	chr2:234464274..234466431-chr2:234607467..234610619,3	MCF-7	breast:
3	chr2:234467119..234468871-chr2:234606248..234608879,2	MCF-7	breast:
4	chr2:234607784..234610773-chr2:234739083..234742311,4	MCF-7	breast:
5	chr2:234606620..234610585-chr2:234612683..234620351,17	MCF-7	breast:
6	chr2:234382718..234385306-chr2:234606454..234608053,2	MCF-7	breast:
7	chr2:234606390..234610516-chr2:234613313..234618925,12	MCF-7	breast:
8	chr2:234393470..234398510-chr2:234607909..234611299,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000085982	Chromatin interaction
ENSG00000224814	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs17863784	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs17863786	0.80[YRI][hapmap]
rs17864692	1.00[YRI][hapmap];1.00[AFR][1000 genomes]

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	nsv529419	chr2:234229606-234670426	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv428072	chr2:234393609-234624769	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1010936	chr2:234549011-234640221	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1013712	chr2:234558457-235495825	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv532476	chr2:234595695-235134381	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234597800-234608600	Weak transcription	Gastric	stomach
2	chr2:234600400-234608200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:234602800-234614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:234604200-234608600	Weak transcription	HepG2	liver
5	chr2:234605600-234609000	Enhancers	Liver	Liver
6	chr2:234607000-234609200	Enhancers	Hela-S3	cervix
7	chr2:234607200-234608200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr2:234607400-234608600	Genic enhancers	NHEK	skin
9	chr2:234607400-234609000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:234607400-234609200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr2:234607600-234609200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr2:234607800-234608600	Weak transcription	Pancreas	Pancrea
13	chr2:234607800-234609200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr2:234607800-234609200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr2:234607800-234609200	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr2:234608000-234608400	Enhancers	A549	lung
17	chr2:234608000-234609000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:234608000-234609000	Enhancers	Stomach Mucosa	stomach
19	chr2:234608000-234609000	Enhancers	HUVEC	blood vessel
20	chr2:234608000-234609200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr2:234608000-234609200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr2:234608000-234609200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links