Variant report

Variant	rs6901019
Chromosome Location	chr6:149415039-149415040
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:149401028..149403801-chr6:149413849..149415930,2	MCF-7	breast:
2	chr6:149409974..149412815-chr6:149414835..149416934,2	K562	blood:
3	chr6:149413026..149415707-chr6:149636952..149639609,2	MCF-7	breast:
4	chr6:149414073..149415893-chr6:149615671..149617691,2	MCF-7	breast:
5	chr6:149381088..149383058-chr6:149414648..149416261,2	MCF-7	breast:
6	chr6:149412611..149415289-chr6:149531964..149533952,2	MCF-7	breast:
7	chr6:149350211..149352689-chr6:149414804..149416948,2	MCF-7	breast:
8	chr6:149414327..149416507-chr6:149637915..149640707,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000055208	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10457074	0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10872629	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10872630	0.83[JPT][hapmap]
rs10872631	0.87[JPT][hapmap]
rs11755147	0.87[JPT][hapmap]
rs11759315	0.88[JPT][hapmap]
rs12201653	0.87[JPT][hapmap]
rs12211152	0.94[JPT][hapmap]
rs1316535	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1317171	0.86[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1320575	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17669693	0.89[JPT][hapmap]
rs17732007	0.87[JPT][hapmap]
rs1934217	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1934218	0.81[JPT][hapmap]
rs1934220	0.87[JPT][hapmap]
rs2340798	0.87[CEU][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4243484	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4897078	0.89[JPT][hapmap]
rs6570933	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6570934	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570935	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6570938	0.80[EUR][1000 genomes]
rs6901863	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6903827	0.87[JPT][hapmap]
rs6915298	0.86[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6931675	0.86[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6932386	0.89[JPT][hapmap]
rs6935330	0.87[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6936176	0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6939103	0.89[JPT][hapmap]
rs7738162	0.83[CEU][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7747463	0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7756263	0.83[JPT][hapmap]
rs7760242	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7761119	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7765778	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs7772696	0.89[JPT][hapmap]
rs7776117	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9285516	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9322166	0.90[CHB][hapmap];0.94[JPT][hapmap];0.90[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	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv830842	chr6:149272321-149427340	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149402400-149416200	Weak transcription	Fetal Heart	heart
2	chr6:149410800-149418400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:149411800-149415800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr6:149412200-149415200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:149413000-149415600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:149413000-149415600	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr6:149413000-149416000	Enhancers	Primary T cells fromperipheralblood	blood
8	chr6:149413000-149416000	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr6:149413000-149416000	Enhancers	Dnd41	blood
10	chr6:149413200-149415200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:149413200-149416000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr6:149413400-149416000	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr6:149413600-149416000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr6:149414000-149415200	Weak transcription	GM12878-XiMat	blood
15	chr6:149414000-149415800	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr6:149414200-149417600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr6:149414200-149418400	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr6:149414400-149415200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:149414400-149415600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr6:149414400-149415600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr6:149414400-149415600	Enhancers	NHLF	lung
22	chr6:149414400-149416200	Enhancers	Fetal Lung	lung
23	chr6:149414400-149416400	Enhancers	Muscle Satellite Cultured Cells	--
24	chr6:149414400-149416400	Enhancers	NH-A	brain
25	chr6:149414600-149415200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:149414600-149415400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:149414600-149415400	Enhancers	HSMMtube	muscle
28	chr6:149414600-149415600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:149414600-149415800	Enhancers	Duodenum Smooth Muscle	Duodenum
30	chr6:149414600-149416000	Enhancers	Placenta Amnion	Placenta Amnion
31	chr6:149414600-149416200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:149414600-149416400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr6:149414600-149416600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:149414600-149416600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr6:149414600-149416800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr6:149414600-149416800	Enhancers	Osteobl	bone
37	chr6:149414600-149417200	Enhancers	Fetal Stomach	stomach
38	chr6:149414600-149417400	Enhancers	Rectal Smooth Muscle	rectum
39	chr6:149414600-149417600	Enhancers	Primary T cells from cord blood	blood
40	chr6:149414800-149415600	Enhancers	Fetal Muscle Leg	muscle
41	chr6:149414800-149415600	Enhancers	HSMM	muscle
42	chr6:149414800-149416000	Enhancers	Hela-S3	cervix
43	chr6:149414800-149416200	Enhancers	Ovary	ovary
44	chr6:149414800-149416400	Enhancers	Placenta	Placenta
45	chr6:149414800-149418000	Enhancers	Primary hematopoietic stem cells	blood
46	chr6:149415000-149415200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr6:149415000-149415200	Enhancers	Esophagus	oesophagus
48	chr6:149415000-149415400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr6:149415000-149415400	Enhancers	Adipose Nuclei	Adipose
50	chr6:149415000-149415400	Enhancers	Gastric	stomach

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