Variant report

Variant	rs853965
Chromosome Location	chr6:127036174-127036175
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1101556	0.89[EUR][1000 genomes]
rs1101557	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1101558	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1101559	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1155938	0.87[EUR][1000 genomes]
rs1155939	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1262545	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1262546	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1340952	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1340953	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1490384	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1490385	0.86[EUR][1000 genomes]
rs1538956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1826189	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1844593	0.90[EUR][1000 genomes]
rs3861455	0.83[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs3905044	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4243491	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4339479	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4380768	0.87[EUR][1000 genomes]
rs4626447	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4629707	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4895813	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6911485	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6913430	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6918725	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6921183	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6925689	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7738836	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7743860	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs8180649	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs853961	0.96[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs853962	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs853966	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853968	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853969	0.90[EUR][1000 genomes]
rs853970	0.89[EUR][1000 genomes]
rs853971	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs853972	0.89[EUR][1000 genomes]
rs853973	0.89[EUR][1000 genomes]
rs853975	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853976	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853977	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853979	0.90[EUR][1000 genomes]
rs853981	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853982	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853983	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853985	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs853986	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs853987	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs861237	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs864937	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs864938	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9375447	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9375450	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9388500	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9388507	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9388509	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9401888	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs979197	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026498	chr6:126812609-127397240	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1024206	chr6:126873187-127475713	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv538438	chr6:126873187-127475713	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv830797	chr6:126923875-127100956	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv981342	chr6:127013669-127036447	Enhancers Flanking Active TSS Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:127034400-127036200	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr6:127034400-127036400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr6:127034800-127036400	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr6:127035000-127036200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:127035000-127036200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr6:127035200-127038800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:127035400-127036200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:127035800-127036400	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr6:127035800-127038600	Enhancers	HSMMtube	muscle
10	chr6:127036000-127037200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:127036000-127038200	Weak transcription	GM12878-XiMat	blood
12	chr6:127036000-127041600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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