Variant report

Variant	rs549875
Chromosome Location	chr6:113881360-113881361
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:113752149..113753980-chr6:113879220..113882165,2	MCF-7	breast:
2	chr6:113879729..113882473-chr6:113886043..113888473,2	MCF-7	breast:
3	chr6:113880258..113881840-chr6:113889063..113891417,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232316	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1481432	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1585973	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1600767	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075218	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17075221	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1904994	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1982686	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493884	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2493885	1.00[EUR][1000 genomes]
rs2493891	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3963300	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4337960	1.00[EUR][1000 genomes]
rs531979	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs547797	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56303196	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57194334	1.00[EUR][1000 genomes]
rs58875635	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58891033	1.00[EUR][1000 genomes]
rs59844934	1.00[EUR][1000 genomes]
rs59950054	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60295562	1.00[EUR][1000 genomes]
rs60504130	1.00[EUR][1000 genomes]
rs61320559	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61734440	0.94[ASN][1000 genomes]
rs6913809	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6926011	1.00[EUR][1000 genomes]
rs6935853	1.00[ASN][1000 genomes]
rs6942149	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73531703	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73531704	1.00[ASN][1000 genomes]
rs73531705	1.00[ASN][1000 genomes]
rs73531708	1.00[ASN][1000 genomes]
rs73531717	1.00[ASN][1000 genomes]
rs73547807	0.88[ASN][1000 genomes]
rs73547876	0.88[ASN][1000 genomes]
rs73547891	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73549618	1.00[ASN][1000 genomes]
rs73549630	1.00[ASN][1000 genomes]
rs73549634	1.00[ASN][1000 genomes]
rs73549650	1.00[ASN][1000 genomes]
rs73549652	0.89[ASN][1000 genomes]
rs73549655	1.00[ASN][1000 genomes]
rs73765222	0.88[ASN][1000 genomes]
rs73765224	1.00[EUR][1000 genomes]
rs73765225	1.00[EUR][1000 genomes]
rs73765232	0.88[ASN][1000 genomes]
rs73765247	1.00[EUR][1000 genomes]
rs73765248	1.00[ASN][1000 genomes]
rs73765256	1.00[EUR][1000 genomes]
rs73765261	1.00[EUR][1000 genomes]
rs73765266	1.00[EUR][1000 genomes]
rs73765267	1.00[EUR][1000 genomes]
rs73765271	1.00[EUR][1000 genomes]
rs73765272	1.00[EUR][1000 genomes]
rs73765273	1.00[EUR][1000 genomes]
rs73765283	1.00[EUR][1000 genomes]
rs7745709	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7749447	1.00[EUR][1000 genomes]
rs7752840	1.00[EUR][1000 genomes]
rs7753356	0.88[ASN][1000 genomes]
rs7753869	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7754686	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7758523	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7759659	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762969	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv916294	chr6:113518489-113904305	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:113876600-113885600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr6:113877600-113885600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:113878800-113885600	Weak transcription	Fetal Intestine Small	intestine
4	chr6:113879200-113883000	Enhancers	NH-A	brain
5	chr6:113879200-113883400	Enhancers	NHDF-Ad	bronchial
6	chr6:113879400-113882000	Enhancers	HSMM	muscle
7	chr6:113879400-113883000	Enhancers	HSMMtube	muscle
8	chr6:113879400-113883000	Enhancers	Osteobl	bone
9	chr6:113879400-113883200	Enhancers	NHEK	skin
10	chr6:113879400-113883400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:113879600-113882800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:113879600-113885600	Weak transcription	Stomach Smooth Muscle	stomach
13	chr6:113879800-113882600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:113879800-113885600	Weak transcription	Fetal Brain Female	brain
15	chr6:113880000-113885000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:113880000-113885800	Weak transcription	Fetal Muscle Trunk	muscle
17	chr6:113880200-113883200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:113880400-113881800	Weak transcription	NHLF	lung
19	chr6:113880400-113882800	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr6:113880400-113885600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:113880400-113885600	Weak transcription	Ovary	ovary
22	chr6:113880600-113881400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:113880600-113881600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:113880600-113882400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:113880600-113883000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:113880600-113883000	Enhancers	HUVEC	blood vessel
27	chr6:113880600-113884200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:113880600-113885600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:113880600-113885600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:113880600-113885800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr6:113880800-113881800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr6:113880800-113882800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:113880800-113883000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:113880800-113883000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:113880800-113883400	Weak transcription	GM12878-XiMat	blood
36	chr6:113880800-113884200	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr6:113880800-113885400	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr6:113880800-113885600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr6:113880800-113885600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:113880800-113885600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr6:113880800-113885600	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:113880800-113885600	Weak transcription	Rectal Smooth Muscle	rectum
43	chr6:113881000-113881800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:113881000-113882000	Weak transcription	A549	lung
45	chr6:113881000-113883800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr6:113881000-113884000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr6:113881000-113885000	Weak transcription	Fetal Stomach	stomach
48	chr6:113881000-113885400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr6:113881000-113885600	Weak transcription	Colon Smooth Muscle	Colon
50	chr6:113881200-113883200	Enhancers	HMEC	breast

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