Variant report

Variant	rs295274
Chromosome Location	chr9:86468715-86468716
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10124390	0.87[CHB][hapmap]
rs10868058	0.96[CEU][hapmap];0.91[CHB][hapmap]
rs10868077	0.82[CHB][hapmap]
rs10868079	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11140240	0.92[CEU][hapmap];0.96[CHB][hapmap];0.86[JPT][hapmap]
rs11792634	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap]
rs12349272	1.00[CEU][hapmap];0.96[CHB][hapmap];0.86[JPT][hapmap]
rs12377335	0.82[AMR][1000 genomes]
rs12551039	0.83[CHB][hapmap]
rs1572030	0.87[CHB][hapmap]
rs1572031	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs192705	0.91[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs2065516	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2780142	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs295270	0.81[ASN][1000 genomes]
rs295275	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs295288	0.87[ASN][1000 genomes]
rs295291	1.00[CEU][hapmap];0.96[CHB][hapmap];0.86[JPT][hapmap]
rs296885	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs296891	0.87[CHB][hapmap]
rs296892	0.83[CHB][hapmap]
rs3119753	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs427314	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4297107	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap]
rs4877815	0.83[CHB][hapmap]
rs6559750	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6559754	0.87[CHB][hapmap]
rs6559756	0.83[CHB][hapmap]
rs7021189	0.83[CHB][hapmap]
rs7026436	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs754144	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs7855503	1.00[CEU][hapmap];0.96[CHB][hapmap];0.86[JPT][hapmap]
rs7869387	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7875011	0.83[CHB][hapmap]
rs7875289	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs796001	0.83[CHB][hapmap]
rs9314723	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469859	chr9:86398152-86587957	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv482641	chr9:86398152-86587957	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	esv2758192	chr9:86414024-86603602	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2759701	chr9:86414024-86603602	Enhancers Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv982312	chr9:86424154-86490046	Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv6590	chr9:86435603-86480442	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv8540	chr9:86458587-86470369	Strong transcription ZNF genes & repeats Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86447800-86470800	Weak transcription	Brain Germinal Matrix	brain
2	chr9:86456600-86472600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr9:86457400-86469000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr9:86460000-86474000	Weak transcription	Adipose Nuclei	Adipose
5	chr9:86460600-86518200	Weak transcription	Thymus	Thymus
6	chr9:86461600-86535400	Weak transcription	Fetal Intestine Small	intestine
7	chr9:86461600-86535400	Weak transcription	Ovary	ovary
8	chr9:86462200-86471200	Weak transcription	Liver	Liver
9	chr9:86462200-86475400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr9:86462200-86535200	Weak transcription	Fetal Brain Female	brain
11	chr9:86462400-86482400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr9:86462600-86469600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:86462600-86499200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr9:86462600-86500600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr9:86462600-86503800	Weak transcription	Dnd41	blood
16	chr9:86462600-86535200	Weak transcription	Brain Anterior Caudate	brain
17	chr9:86462800-86471200	Weak transcription	Fetal Lung	lung
18	chr9:86462800-86515000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:86462800-86518000	Weak transcription	Fetal Intestine Large	intestine
20	chr9:86462800-86518000	Weak transcription	Fetal Stomach	stomach

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