Variant report

Variant	rs6940915
Chromosome Location	chr6:149402267-149402268
allele	C/G
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:149364667..149368591-chr6:149398600..149403391,5	MCF-7	breast:
2	chr6:149376456..149387248-chr6:149393069..149406749,44	MCF-7	breast:
3	chr6:149399709..149402380-chr6:149772394..149774498,2	K562	blood:
4	chr6:149401082..149403539-chr6:149632212..149635956,4	MCF-7	breast:
5	chr6:149400077..149402541-chr6:149553088..149555803,2	MCF-7	breast:
6	chr6:149358004..149360292-chr6:149400901..149403577,2	MCF-7	breast:
7	chr6:149398184..149404330-chr6:149748783..149757211,17	MCF-7	breast:
8	chr6:149400690..149404463-chr6:149557705..149560765,3	MCF-7	breast:
9	chr6:149400971..149403372-chr6:149403878..149405547,2	K562	blood:
10	chr6:149400900..149408936-chr6:149636750..149640736,16	MCF-7	breast:
11	chr6:149340644..149342659-chr6:149400805..149403044,2	MCF-7	breast:
12	chr6:149350906..149355297-chr6:149396132..149403444,27	MCF-7	breast:
13	chr6:149393800..149396694-chr6:149401142..149403800,2	K562	blood:
14	chr6:149401028..149403801-chr6:149413849..149415930,2	MCF-7	breast:
15	chr6:149068413..149070545-chr6:149400002..149402666,2	MCF-7	breast:
16	chr6:149393614..149396694-chr6:149401142..149403800,3	K562	blood:
17	chr6:149401024..149403693-chr6:149738152..149741655,3	K562	blood:
18	chr6:149400434..149403081-chr6:149638090..149639793,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000236591	Chromatin interaction
ENSG00000111962	Chromatin interaction
ENSG00000055208	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10457075	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10457839	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10457842	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10499251	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12153925	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12196284	1.00[JPT][hapmap]
rs12197040	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12200909	0.92[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12202158	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12206419	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1316376	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13190879	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13217006	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17669546	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1890610	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1890612	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1934221	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1934222	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1934223	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1934227	0.81[CEU][hapmap]
rs2153251	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2153252	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2185250	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34118116	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34599887	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3949414	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4313020	0.95[CEU][hapmap];0.85[CHB][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4332004	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4336467	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4441968	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4454159	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6570923	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570924	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570926	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570927	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570932	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6900527	1.00[JPT][hapmap]
rs6901626	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6902195	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6902487	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6909527	1.00[JPT][hapmap]
rs6909624	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914281	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6914318	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6914925	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6917010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6924503	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6930713	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6932773	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6940664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7773409	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7776204	1.00[JPT][hapmap]
rs9322165	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9485353	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9498197	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9498199	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9498201	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9498202	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9498204	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9498205	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9498207	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[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:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149385200-149404000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:149387400-149404200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:149395000-149415000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr6:149396800-149403400	Enhancers	Muscle Satellite Cultured Cells	--
5	chr6:149397400-149403400	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr6:149397400-149403600	Weak transcription	Primary T cells from cord blood	blood
7	chr6:149397600-149403600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:149397800-149407600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr6:149398600-149403200	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr6:149398800-149402800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:149398800-149403800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr6:149399000-149402400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:149399000-149403200	Weak transcription	Primary B cells from cord blood	blood
14	chr6:149399000-149403200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr6:149399000-149403200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:149399000-149403600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:149399200-149415000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:149399800-149403000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr6:149400000-149402800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:149400200-149403000	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr6:149400200-149406000	Enhancers	Dnd41	blood
22	chr6:149400400-149402400	Enhancers	Fetal Stomach	stomach
23	chr6:149400400-149402400	Enhancers	HepG2	liver
24	chr6:149400400-149402600	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr6:149400400-149402800	Enhancers	NHLF	lung
26	chr6:149400400-149403000	Enhancers	Rectal Smooth Muscle	rectum
27	chr6:149400400-149403200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:149400400-149403400	Enhancers	Osteobl	bone
29	chr6:149400600-149402400	Enhancers	Fetal Heart	heart
30	chr6:149400600-149402600	Enhancers	Duodenum Smooth Muscle	Duodenum
31	chr6:149400600-149402800	Enhancers	HSMM	muscle
32	chr6:149400600-149403000	Weak transcription	Primary B cells from peripheral blood	blood
33	chr6:149400600-149403000	Enhancers	Monocytes-CD14+_RO01746	blood
34	chr6:149400600-149406800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:149400800-149402400	Enhancers	Placenta Amnion	Placenta Amnion
36	chr6:149400800-149402800	Enhancers	Primary hematopoietic stem cells short term culture	blood
37	chr6:149400800-149403000	Enhancers	Colon Smooth Muscle	Colon
38	chr6:149401000-149402600	Enhancers	Fetal Lung	lung
39	chr6:149401000-149402600	Enhancers	NH-A	brain
40	chr6:149401200-149402600	Enhancers	Aorta	Aorta
41	chr6:149401400-149402400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr6:149401400-149403800	Enhancers	GM12878-XiMat	blood
43	chr6:149401400-149404000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr6:149401600-149402400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:149401600-149402400	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr6:149401800-149403600	Weak transcription	Brain Anterior Caudate	brain
47	chr6:149401800-149403800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr6:149402000-149402600	Enhancers	Stomach Smooth Muscle	stomach
49	chr6:149402000-149403200	Weak transcription	Liver	Liver
50	chr6:149402000-149403800	Weak transcription	Brain Hippocampus Middle	brain

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