Variant report

Variant	rs455001
Chromosome Location	chr6:145854450-145854451
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1070518	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11155438	0.95[JPT][hapmap]
rs1280279	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1292333	0.95[JPT][hapmap]
rs1292334	0.95[JPT][hapmap]
rs1415744	0.95[JPT][hapmap]
rs2142978	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2206142	0.81[EUR][1000 genomes]
rs2223411	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs367693	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs385729	0.81[ASN][1000 genomes]
rs399502	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs401561	0.82[ASN][1000 genomes]
rs403345	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs403956	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs405206	0.82[ASN][1000 genomes]
rs407887	0.82[ASN][1000 genomes]
rs426371	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4398765	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs440477	0.81[ASN][1000 genomes]
rs441982	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs451108	0.82[ASN][1000 genomes]
rs4896832	0.95[JPT][hapmap]
rs4896837	0.95[JPT][hapmap]
rs4896838	1.00[JPT][hapmap]
rs6570701	0.95[JPT][hapmap]
rs6570708	0.95[JPT][hapmap]
rs6901888	0.95[JPT][hapmap]
rs6930154	0.95[JPT][hapmap]
rs6941429	0.95[JPT][hapmap]
rs697053	0.95[JPT][hapmap]
rs697054	0.95[JPT][hapmap]
rs697055	0.95[JPT][hapmap]
rs702304	0.95[JPT][hapmap]
rs702306	0.95[JPT][hapmap]
rs702307	0.95[JPT][hapmap]
rs702316	0.89[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]
rs702318	1.00[JPT][hapmap]
rs702319	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs702322	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs702324	1.00[JPT][hapmap]
rs7753273	0.80[EUR][1000 genomes]
rs857875	0.95[JPT][hapmap]
rs857877	0.95[JPT][hapmap]
rs857880	0.95[JPT][hapmap]
rs857881	0.95[JPT][hapmap]
rs857882	0.95[JPT][hapmap]
rs857883	0.95[JPT][hapmap]
rs867056	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9373467	1.00[CEU][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9376951	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9376961	0.95[JPT][hapmap]
rs9399561	0.95[JPT][hapmap]
rs9403725	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9403737	0.95[JPT][hapmap]
rs9403739	1.00[JPT][hapmap]
rs9485017	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap]
rs9497315	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9497395	0.81[JPT][hapmap]
rs9497403	0.81[EUR][1000 genomes]

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	nsv886746	chr6:145815949-145920894	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv886747	chr6:145815949-145922777	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1028290	chr6:145819982-145911857	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv886748	chr6:145835917-145911730	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1021041	chr6:145836942-145887333	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1016881	chr6:145840961-145887333	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv538465	chr6:145840961-145887333	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145850800-145854600	Bivalent Enhancer	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:145851800-145856000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:145852000-145856600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr6:145852800-145854600	Enhancers	Stomach Mucosa	stomach
5	chr6:145853000-145860800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:145853800-145861000	Weak transcription	Left Ventricle	heart
7	chr6:145854000-145854800	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
8	chr6:145854200-145854600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:145854200-145854600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
10	chr6:145854200-145854800	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
11	chr6:145854200-145854800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
12	chr6:145854200-145854800	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
13	chr6:145854200-145854800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:145854400-145854600	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell

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