Variant report

Variant	rs2903505
Chromosome Location	chr18:9628853-9628854
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:9627468..9629148-chr18:9631077..9633967,2	MCF-7	breast:
2	chr18:9627920..9630651-chr18:9632769..9635738,3	K562	blood:
3	chr18:9613322..9616400-chr18:9628599..9633857,7	MCF-7	breast:
4	chr18:9616624..9619206-chr18:9627826..9630962,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000154845	Chromatin interaction
ENSG00000263627	Chromatin interaction
ENSG00000212572	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11874827	0.82[CEU][hapmap]
rs12455573	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12458145	0.82[CEU][hapmap]
rs2306134	0.82[CEU][hapmap];0.85[MEX][hapmap];0.87[TSI][hapmap]
rs28817058	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28861672	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2903503	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3898762	0.82[CEU][hapmap]
rs4325639	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs584737	0.86[JPT][hapmap]
rs60571867	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs745218	0.80[CEU][hapmap];0.85[MEX][hapmap]
rs8095826	0.83[ASN][1000 genomes]
rs9304040	0.82[CEU][hapmap];0.85[MEX][hapmap];0.87[TSI][hapmap]
rs9945701	0.82[CEU][hapmap]
rs9946612	0.82[CEU][hapmap];0.85[MEX][hapmap];0.82[TSI][hapmap]
rs9948354	0.83[ASN][1000 genomes]
rs9948831	0.81[CEU][hapmap];0.85[MEX][hapmap]
rs9961558	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693417	chr18:9512985-9693638	Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv458024	chr18:9558240-9828448	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv576448	chr18:9558240-9828448	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	nsv576449	chr18:9623052-9700382	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:9617600-9630600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:9627800-9630600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr18:9627800-9630600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr18:9627800-9632200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr18:9628000-9629000	Enhancers	Placenta	Placenta
6	chr18:9628000-9630000	Weak transcription	NHDF-Ad	bronchial
7	chr18:9628000-9630400	Weak transcription	K562	blood
8	chr18:9628000-9630600	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr18:9628000-9630600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr18:9628000-9630600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr18:9628000-9630600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr18:9628000-9631400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr18:9628000-9631400	Weak transcription	Osteobl	bone
14	chr18:9628000-9631600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr18:9628000-9631600	Weak transcription	A549	lung
16	chr18:9628000-9631800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr18:9628000-9631800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr18:9628000-9631800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr18:9628000-9631800	Weak transcription	NH-A	brain
20	chr18:9628000-9632200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr18:9628000-9642800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr18:9628200-9629200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr18:9628200-9629800	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr18:9628200-9630000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr18:9628200-9630000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr18:9628200-9630600	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr18:9628200-9630600	Weak transcription	Hela-S3	cervix
28	chr18:9628200-9631000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr18:9628200-9631200	Weak transcription	NHLF	lung
30	chr18:9628200-9631600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr18:9628200-9631600	Weak transcription	HSMMtube	muscle
32	chr18:9628200-9631800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr18:9628200-9631800	Weak transcription	NHEK	skin
34	chr18:9628200-9632000	Weak transcription	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links