Variant report

Variant	rs6457899
Chromosome Location	chr6:11852640-11852641
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11848626..11851271-chr6:11851850..11855072,3	K562	blood:
2	chr6:11843056..11848062-chr6:11852373..11856845,8	K562	blood:
3	chr6:11851522..11853386-chr6:11855084..11856597,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10807158	1.00[ASN][1000 genomes]
rs10947590	1.00[ASN][1000 genomes]
rs13190940	1.00[ASN][1000 genomes]
rs4499926	1.00[ASN][1000 genomes]
rs4499927	1.00[ASN][1000 genomes]
rs4569952	1.00[ASN][1000 genomes]
rs4711435	1.00[ASN][1000 genomes]
rs4711436	1.00[ASN][1000 genomes]
rs4711438	1.00[ASN][1000 genomes]
rs4711444	1.00[ASN][1000 genomes]
rs4711449	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713934	1.00[ASN][1000 genomes]
rs4713965	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713980	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457906	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457908	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905247	1.00[ASN][1000 genomes]
rs6920198	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs761372	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs761373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746013	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7758167	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs910153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296175	0.86[GIH][hapmap]
rs9348988	1.00[ASN][1000 genomes]
rs9366905	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368935	1.00[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380562	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394338	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394354	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9394355	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5201	chr6:11833966-11879236	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11844600-11854000	Weak transcription	NHLF	lung
2	chr6:11847000-11854800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:11847200-11854600	Weak transcription	Gastric	stomach
4	chr6:11849000-11853800	Weak transcription	Stomach Mucosa	stomach
5	chr6:11849000-11854000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:11849800-11854600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr6:11850000-11854800	Weak transcription	HUVEC	blood vessel
8	chr6:11850400-11854800	Weak transcription	Pancreas	Pancrea
9	chr6:11851000-11853000	Enhancers	HSMM	muscle
10	chr6:11851800-11852800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr6:11851800-11852800	Enhancers	Fetal Muscle Trunk	muscle
12	chr6:11851800-11854600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:11852000-11852800	Weak transcription	Fetal Kidney	kidney
14	chr6:11852000-11853000	Active TSS	Brain Hippocampus Middle	brain
15	chr6:11852000-11853200	Active TSS	Skeletal Muscle Female	skeletal muscle
16	chr6:11852000-11854000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:11852000-11854600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr6:11852000-11854600	Weak transcription	NHEK	skin
19	chr6:11852000-11866200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:11852200-11853200	Active TSS	Brain Anterior Caudate	brain
21	chr6:11852200-11854000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:11852200-11854000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:11852200-11854400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:11852400-11852800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
25	chr6:11852400-11852800	Active TSS	Brain Inferior Temporal Lobe	brain
26	chr6:11852400-11852800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
27	chr6:11852400-11852800	Flanking Active TSS	Fetal Muscle Leg	muscle
28	chr6:11852400-11852800	Active TSS	GM12878-XiMat	blood
29	chr6:11852400-11854000	Weak transcription	Osteobl	bone
30	chr6:11852400-11854600	Weak transcription	Hela-S3	cervix
31	chr6:11852400-11854600	Weak transcription	NHDF-Ad	bronchial
32	chr6:11852400-11855000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:11852600-11852800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:11852600-11852800	Enhancers	Muscle Satellite Cultured Cells	--
35	chr6:11852600-11852800	Flanking Active TSS	Brain Substantia Nigra	brain
36	chr6:11852600-11852800	Enhancers	Ovary	ovary
37	chr6:11852600-11852800	Flanking Active TSS	Psoas Muscle	Psoas
38	chr6:11852600-11852800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
39	chr6:11852600-11853000	Enhancers	Brain Angular Gyrus	brain
40	chr6:11852600-11853000	Flanking Active TSS	Fetal Brain Female	brain
41	chr6:11852600-11854000	Weak transcription	HSMMtube	muscle
42	chr6:11852600-11854000	Weak transcription	NH-A	brain
43	chr6:11852600-11854200	Enhancers	Fetal Brain Male	brain
44	chr6:11852600-11854600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:11852600-11854600	Enhancers	Liver	Liver
46	chr6:11852600-11854800	Weak transcription	HMEC	breast
47	chr6:11852600-11855200	Enhancers	Primary monocytes fromperipheralblood	blood
48	chr6:11852600-11855200	Enhancers	Fetal Lung	lung
49	chr6:11852600-11855200	Enhancers	Fetal Stomach	stomach

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