Variant report

Variant	rs9425484
Chromosome Location	chr1:180096531-180096532
allele	C/T
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	chr1:180095863..180097872-chr1:180124437..180126586,3	MCF-7	breast:
2	chr1:179922333..179925402-chr1:180094478..180098472,3	K562	blood:
3	chr1:180091610..180094516-chr1:180096321..180097849,2	MCF-7	breast:
4	chr1:180095534..180097819-chr1:180123272..180124812,2	K562	blood:
5	chr1:180094856..180097003-chr1:180124933..180127557,2	K562	blood:
6	chr1:180094467..180097034-chr1:180123312..180125749,2	K562	blood:
7	chr1:180095809..180098718-chr1:180115935..180118592,2	K562	blood:
8	chr1:180094976..180098396-chr1:180099565..180103492,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000261817	Chromatin interaction
ENSG00000116260	Chromatin interaction
ENSG00000260360	Chromatin interaction
ENSG00000135837	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10798731	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10913915	1.00[CEU][hapmap]
rs10913926	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs10913928	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10913929	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11579402	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12119113	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12124175	1.00[CEU][hapmap]
rs12124336	1.00[CEU][hapmap]
rs12141545	1.00[CEU][hapmap]
rs12743903	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12744192	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3845390	1.00[CEU][hapmap]
rs4083553	1.00[CEU][hapmap]
rs55882713	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61605706	0.89[EUR][1000 genomes]
rs6425605	0.89[EUR][1000 genomes]
rs6693288	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6702845	1.00[CEU][hapmap]
rs7521701	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7522347	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7539784	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7550093	1.00[CEU][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7555418	1.00[CEU][hapmap];0.81[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9425862	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9425869	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv429936	chr1:179790343-180214343	Active TSS Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv1003739	chr1:180027760-180483292	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv535217	chr1:180027760-180483292	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv1012558	chr1:180027960-180217613	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv535218	chr1:180027960-180217613	Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv497930	chr1:180031321-180220723	Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv533073	chr1:180031328-180217612	Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	nsv916937	chr1:180031328-180220685	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180086600-180100800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:180086600-180102400	Weak transcription	Pancreas	Pancrea
3	chr1:180087000-180097800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:180087200-180097000	Weak transcription	Lung	lung
5	chr1:180087200-180097400	Weak transcription	Esophagus	oesophagus
6	chr1:180089200-180097400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr1:180094600-180098000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr1:180095200-180100200	Enhancers	Primary neutrophils fromperipheralblood	blood
9	chr1:180095400-180096600	Enhancers	NHEK	skin
10	chr1:180095600-180096600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr1:180095600-180097400	Enhancers	Stomach Mucosa	stomach
12	chr1:180095800-180096600	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr1:180096000-180097200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:180096000-180099600	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr1:180096000-180102400	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr1:180096200-180096600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr1:180096200-180097000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr1:180096200-180097600	Enhancers	Primary B cells from cord blood	blood
19	chr1:180096400-180099800	Weak transcription	Fetal Intestine Small	intestine
20	chr1:180096400-180100800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links