Variant report

Variant	rs853966
Chromosome Location	chr6:127037236-127037237
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1101557	0.82[AFR][1000 genomes]
rs1101558	1.00[ASN][1000 genomes]
rs1101559	1.00[ASN][1000 genomes]
rs1262545	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1262546	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1340952	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1340953	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1538956	0.85[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1826189	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3861455	0.80[EUR][1000 genomes]
rs3905044	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4243491	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4339479	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4626447	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4629707	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4895813	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6911485	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6913430	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6918725	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7738836	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7743860	0.85[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap]
rs8180649	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs853961	1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs853962	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs853965	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853968	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs853971	0.82[AFR][1000 genomes]
rs853975	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs853976	1.00[ASN][1000 genomes]
rs853977	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853979	0.80[EUR][1000 genomes]
rs853981	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853982	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853983	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs853985	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs853986	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs853987	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs861237	1.00[ASN][1000 genomes]
rs864937	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs864938	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9375450	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9388507	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9388509	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs979197	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:127035200-127038800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:127035800-127038600	Enhancers	HSMMtube	muscle
3	chr6:127036000-127038200	Weak transcription	GM12878-XiMat	blood
4	chr6:127036000-127041600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:127036200-127037400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:127036200-127037800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr6:127036200-127038000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:127036400-127037400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:127036400-127037400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr6:127036400-127037600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr6:127036400-127038400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:127036800-127038600	Enhancers	HSMM	muscle
13	chr6:127036800-127038600	Enhancers	NHDF-Ad	bronchial
14	chr6:127037000-127037400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr6:127037000-127037600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr6:127037000-127037600	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr6:127037200-127037400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:127037200-127037600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:127037200-127037600	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr6:127037200-127037600	Enhancers	Psoas Muscle	Psoas
21	chr6:127037200-127037600	Enhancers	Osteobl	bone
22	chr6:127037200-127037800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:127037200-127038200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:127037200-127038400	Enhancers	Colon Smooth Muscle	Colon
25	chr6:127037200-127038400	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr6:127037200-127038600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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