Variant report

Variant	rs2062761
Chromosome Location	chr9:85649551-85649552
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:85648451..85650186-chr9:85661316..85662880,2	MCF-7	breast:
2	chr9:85648525..85651989-chr9:85652042..85656919,4	MCF-7	breast:
3	chr9:85649085..85650615-chr9:85677008..85679300,2	MCF-7	breast:
4	chr9:85648744..85650697-chr9:85651239..85653092,2	K562	blood:

Variant related genes	Relation type
ENSG00000165105	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1008171	0.96[CEU][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1010480	0.81[CEU][hapmap]
rs10116216	0.87[MEX][hapmap]
rs10116254	0.81[CEU][hapmap]
rs10121204	0.80[CEU][hapmap]
rs10121376	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10121395	0.81[CEU][hapmap]
rs10735559	0.92[CEU][hapmap];0.93[GIH][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs10780561	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs10780562	0.83[CEU][hapmap]
rs10780563	0.81[CEU][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.89[ASN][1000 genomes]
rs10780564	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10780565	0.81[CEU][hapmap]
rs10780567	0.81[CEU][hapmap];0.88[MEX][hapmap]
rs10867928	0.81[CEU][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs10867929	0.81[CEU][hapmap];0.84[MEX][hapmap]
rs10867930	0.89[CEU][hapmap];0.90[JPT][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1125915	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1393562	0.81[CEU][hapmap]
rs1393563	0.92[CEU][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1393565	0.81[CEU][hapmap]
rs1502682	0.81[CEU][hapmap]
rs1502683	0.92[CEU][hapmap];0.81[TSI][hapmap]
rs1502684	0.92[CEU][hapmap];0.83[GIH][hapmap];0.82[EUR][1000 genomes]
rs1502685	0.81[CEU][hapmap]
rs1546315	0.81[CEU][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1546316	0.81[CEU][hapmap]
rs1546317	0.81[CEU][hapmap]
rs1580881	0.81[CEU][hapmap];0.80[AMR][1000 genomes]
rs1976455	0.81[CEU][hapmap];0.84[MEX][hapmap]
rs1995423	0.81[CEU][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2279814	0.81[CEU][hapmap];0.80[MEX][hapmap]
rs4146960	0.80[CEU][hapmap]
rs4146961	0.81[CEU][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4301515	0.81[CEU][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4355855	0.92[CEU][hapmap];0.93[GIH][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs4385545	0.81[CEU][hapmap]
rs4391505	0.92[CEU][hapmap];0.81[TSI][hapmap]
rs4460464	0.87[MEX][hapmap]
rs4623517	0.81[CEU][hapmap]
rs4877244	0.81[CEU][hapmap]
rs4877725	0.92[CEU][hapmap]
rs4877726	0.81[CEU][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6559693	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6559694	0.81[CEU][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.89[ASN][1000 genomes]
rs6559695	0.88[CEU][hapmap];0.96[MEX][hapmap]
rs7019227	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs7024864	0.81[CEU][hapmap]
rs7847666	0.81[CEU][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs7854101	0.81[CEU][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.89[ASN][1000 genomes]
rs7864688	0.80[EUR][1000 genomes]
rs7866666	0.81[CEU][hapmap];0.84[MEX][hapmap]
rs7867614	0.89[ASN][1000 genomes]
rs871512	0.81[CEU][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.82[TSI][hapmap];0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs952450	0.81[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893511	chr9:85495968-85833127	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr9:85640400-85656400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr9:85644200-85649600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr9:85644200-85654800	Weak transcription	Fetal Intestine Small	intestine
4	chr9:85644800-85670600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr9:85645600-85662800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:85647400-85654200	Weak transcription	Gastric	stomach
7	chr9:85647400-85656400	Weak transcription	Stomach Mucosa	stomach
8	chr9:85648200-85649800	Enhancers	NH-A	brain
9	chr9:85648400-85649800	Enhancers	Pancreas	Pancrea
10	chr9:85648400-85650200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:85648400-85650200	Enhancers	HMEC	breast
12	chr9:85649000-85649600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:85649000-85649600	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:85649000-85649600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:85649000-85649800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:85649000-85649800	Enhancers	NHEK	skin
17	chr9:85649000-85650000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr9:85649000-85650200	Enhancers	A549	lung
19	chr9:85649200-85649800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:85649400-85649600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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