Variant report

Variant	rs10898672
Chromosome Location	chr11:87041253-87041254
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:87041198-87041347	HepG2	liver:	n/a	n/a
2	POLR2A	chr11:87039992-87042756	HepG2	liver:	n/a	n/a
3	POLR2A	chr11:87035892-87046208	K562	blood:	n/a	n/a

Variant related genes	Relation type
PSMA2P1	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1074356	0.80[ASN][1000 genomes]
rs10792947	0.82[ASN][1000 genomes]
rs10792948	0.82[ASN][1000 genomes]
rs10898670	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10898671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12282551	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12292705	0.99[ASN][1000 genomes]
rs2186723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2186724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34611035	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35841298	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4318005	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4480563	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4644661	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4944702	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043562	chr11:86755535-87547185	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv541120	chr11:86755535-87547185	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv1046288	chr11:86757573-87158571	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:87012800-87044200	Weak transcription	Brain Hippocampus Middle	brain
2	chr11:87014400-87047400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr11:87018000-87042800	Weak transcription	Lung	lung
4	chr11:87021600-87042400	Weak transcription	HSMMtube	muscle
5	chr11:87027600-87043800	Weak transcription	Fetal Kidney	kidney
6	chr11:87033200-87041400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr11:87033600-87044200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr11:87033800-87042800	Weak transcription	Placenta	Placenta
9	chr11:87035000-87041800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr11:87036800-87046400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr11:87037400-87042400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr11:87038800-87043600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr11:87039200-87042400	Weak transcription	Primary T cells from cord blood	blood
14	chr11:87039200-87042600	Weak transcription	Liver	Liver
15	chr11:87040000-87041400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr11:87040000-87041400	Enhancers	Aorta	Aorta
17	chr11:87040600-87041400	Enhancers	Fetal Muscle Leg	muscle
18	chr11:87041200-87041400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr11:87041200-87041600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr11:87041200-87042200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr11:87041200-87042200	Weak transcription	Fetal Stomach	stomach
22	chr11:87041200-87042600	Enhancers	Fetal Lung	lung
23	chr11:87041200-87042800	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links