Variant report

Variant	rs6939638
Chromosome Location	chr6:11430310-11430311
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11427951..11430915-chr6:11435068..11437007,2	MCF-7	breast:
2	chr6:11415153..11417889-chr6:11429693..11432070,2	MCF-7	breast:
3	chr6:11415142..11417104-chr6:11428067..11431006,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000233656	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs16871352	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28854540	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62394953	1.00[ASN][1000 genomes]
rs62395341	1.00[ASN][1000 genomes]
rs6919600	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11423200-11431800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr6:11423400-11430400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:11423400-11430600	Enhancers	NHDF-Ad	bronchial
4	chr6:11423400-11434200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:11423600-11430400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:11423600-11432200	Enhancers	Muscle Satellite Cultured Cells	--
7	chr6:11423600-11435200	Enhancers	HepG2	liver
8	chr6:11423800-11435600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:11424000-11430400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:11424600-11430600	Enhancers	Placenta	Placenta
11	chr6:11424600-11430800	Enhancers	Osteobl	bone
12	chr6:11424800-11430800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr6:11425000-11432200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:11425600-11430600	Enhancers	NHLF	lung
15	chr6:11425600-11436200	Enhancers	Adipose Nuclei	Adipose
16	chr6:11425800-11430600	Enhancers	HSMMtube	muscle
17	chr6:11426400-11431800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:11427000-11432800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:11427400-11433400	Enhancers	NH-A	brain
20	chr6:11427600-11430600	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr6:11427600-11430800	Enhancers	Primary B cells from peripheral blood	blood
22	chr6:11427600-11430800	Enhancers	HSMM	muscle
23	chr6:11427800-11430400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr6:11427800-11430600	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr6:11427800-11430600	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr6:11427800-11432000	Weak transcription	Aorta	Aorta
27	chr6:11428000-11430600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:11428000-11430600	Enhancers	Fetal Kidney	kidney
29	chr6:11428000-11434800	Weak transcription	Psoas Muscle	Psoas
30	chr6:11428000-11438000	Weak transcription	Esophagus	oesophagus
31	chr6:11428200-11430600	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr6:11428200-11430600	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr6:11428200-11430600	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr6:11428200-11431000	Enhancers	Primary B cells from cord blood	blood
35	chr6:11428200-11432400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:11428200-11434400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr6:11428400-11430600	Enhancers	Fetal Thymus	thymus
38	chr6:11428600-11430400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
39	chr6:11428600-11430600	Enhancers	iPS-18 Cell Line	embryonic stem cell
40	chr6:11428600-11433400	Weak transcription	Fetal Intestine Small	intestine
41	chr6:11428600-11434600	Weak transcription	Pancreas	Pancrea
42	chr6:11428800-11431600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr6:11428800-11431800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:11428800-11432800	Weak transcription	Duodenum Mucosa	Duodenum
45	chr6:11429000-11430800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr6:11429400-11431200	Enhancers	A549	lung
47	chr6:11429400-11432400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr6:11429400-11432400	Weak transcription	Left Ventricle	heart
49	chr6:11429400-11433000	Weak transcription	Brain Anterior Caudate	brain
50	chr6:11429400-11433400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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