Variant report

Variant	rs2025677
Chromosome Location	chr6:11224111-11224112
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11222489..11224264-chr6:11387362..11389387,2	MCF-7	breast:
2	chr6:11201732..11205267-chr6:11223600..11226865,3	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs2025678	0.83[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2146341	0.80[CEU][hapmap]
rs4713247	0.85[CEU][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.93[EUR][1000 genomes]
rs6457107	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6917551	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs941982	0.84[MEX][hapmap]
rs943007	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11211600-11229200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:11211800-11229200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:11214200-11224400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr6:11215400-11224600	Weak transcription	Esophagus	oesophagus
5	chr6:11215400-11232000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:11216200-11224600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:11216200-11228800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:11216400-11229600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:11216600-11228800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr6:11216600-11229000	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr6:11216600-11231800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:11216800-11224800	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr6:11217800-11229400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr6:11218400-11224600	Weak transcription	Ovary	ovary
15	chr6:11219200-11224400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:11219200-11228800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:11219800-11225800	Enhancers	Fetal Heart	heart
18	chr6:11220000-11224600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr6:11220000-11228600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:11220000-11229200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr6:11220000-11230800	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:11220600-11226200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:11220600-11229400	Weak transcription	Colon Smooth Muscle	Colon
24	chr6:11220800-11228800	Weak transcription	Fetal Intestine Large	intestine
25	chr6:11220800-11229200	Weak transcription	Fetal Intestine Small	intestine
26	chr6:11221000-11224200	Weak transcription	NHLF	lung
27	chr6:11221000-11228800	Weak transcription	Brain Cingulate Gyrus	brain
28	chr6:11221000-11229200	Enhancers	Fetal Brain Male	brain
29	chr6:11221000-11229400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr6:11221200-11224400	Weak transcription	Fetal Kidney	kidney
31	chr6:11221200-11224600	Enhancers	HUVEC	blood vessel
32	chr6:11221200-11229600	Weak transcription	HSMM	muscle
33	chr6:11221800-11224600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:11221800-11224600	Enhancers	Primary T cells fromperipheralblood	blood
35	chr6:11221800-11224600	Enhancers	Adipose Nuclei	Adipose
36	chr6:11221800-11224800	Enhancers	NH-A	brain
37	chr6:11221800-11225200	Enhancers	Primary T killer memory cells from peripheral blood	blood
38	chr6:11221800-11225400	Enhancers	Fetal Thymus	thymus
39	chr6:11221800-11226600	Enhancers	Thymus	Thymus
40	chr6:11221800-11228000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr6:11222000-11224400	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:11222200-11224600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:11222200-11225200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
44	chr6:11222200-11229000	Weak transcription	Fetal Stomach	stomach
45	chr6:11222400-11224400	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr6:11222400-11224400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
47	chr6:11222400-11224600	Enhancers	Primary T cells from cord blood	blood
48	chr6:11222400-11224600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr6:11222400-11224600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
50	chr6:11222400-11224800	Enhancers	Primary T helper naive cells from peripheral blood	blood

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