Variant report

Variant	rs6665873
Chromosome Location	chr1:80070470-80070471
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10874047	0.83[ASN][1000 genomes]
rs12088600	0.94[ASN][1000 genomes]
rs12730647	0.94[ASN][1000 genomes]
rs1339784	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339787	0.94[ASN][1000 genomes]
rs1382968	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1382969	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1479738	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1479740	0.92[ASN][1000 genomes]
rs1556942	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17420300	0.92[ASN][1000 genomes]
rs17420481	0.94[ASN][1000 genomes]
rs17454224	0.92[ASN][1000 genomes]
rs34420593	0.88[ASN][1000 genomes]
rs34898118	0.92[ASN][1000 genomes]
rs7551776	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs987961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9943179	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

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	nsv1012004	chr1:79945395-80096748	Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv535017	chr1:79945395-80096748	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1012296	chr1:79945395-80300216	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1005022	chr1:79950774-80106902	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv546636	chr1:79964823-80079996	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv546637	chr1:79984748-80159969	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1012286	chr1:80057078-81005153	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv535018	chr1:80057078-81005153	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:80069400-80071200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr1:80069400-80071600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:80069600-80070600	Enhancers	H9 Cell Line	embryonic stem cell
4	chr1:80069600-80070600	Enhancers	Fetal Intestine Large	intestine
5	chr1:80069600-80070800	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr1:80069600-80070800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr1:80069600-80070800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr1:80069800-80070600	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr1:80069800-80070600	Enhancers	Fetal Intestine Small	intestine
10	chr1:80069800-80070800	Enhancers	H1 Cell Line	embryonic stem cell
11	chr1:80069800-80071000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr1:80070000-80071200	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr1:80070200-80070600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:80070200-80071600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr1:80070400-80070600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:80070400-80070600	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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