Variant report

Variant	rs1233663
Chromosome Location	chr6:28200232-28200233
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28199310..28201659-chr6:28248722..28250391,2	K562	blood:
2	chr6:28198039..28200844-chr6:28211243..28213952,3	MCF-7	breast:
3	chr6:28200128..28202663-chr6:28235372..28237397,2	K562	blood:
4	chr6:28198177..28200363-chr6:28214686..28217029,3	MCF-7	breast:
5	chr6:28198920..28201327-chr6:28323258..28325421,2	K562	blood:

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000137338	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1144707	1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1150667	1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs1150675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1150677	1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1150681	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1150706	1.00[AMR][1000 genomes]
rs12208060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1225589	1.00[AMR][1000 genomes]
rs1225601	1.00[AMR][1000 genomes]
rs1233668	1.00[AMR][1000 genomes]
rs1778485	1.00[AMR][1000 genomes]
rs213229	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs213234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs213242	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2394048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2531829	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2743874	1.00[MKK][hapmap];1.00[YRI][hapmap]
rs2799080	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2859357	1.00[YRI][hapmap]
rs2859361	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2859366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4713154	1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59183152	1.00[AMR][1000 genomes]
rs6902266	1.00[AMR][1000 genomes]
rs853675	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs853677	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs853680	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs853686	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs853691	1.00[AMR][1000 genomes]
rs853692	1.00[YRI][hapmap];1.00[AMR][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	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28193600-28213400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:28193800-28204000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:28193800-28211800	Weak transcription	Fetal Thymus	thymus
4	chr6:28193800-28218400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:28193800-28218400	Weak transcription	Stomach Mucosa	stomach
6	chr6:28194000-28211000	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr6:28194000-28211800	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr6:28194000-28212800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:28194000-28213000	Weak transcription	Thymus	Thymus
10	chr6:28194000-28213600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:28194600-28207000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:28194800-28202800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
13	chr6:28194800-28202800	Strong transcription	Fetal Muscle Trunk	muscle
14	chr6:28194800-28202800	Strong transcription	Rectal Mucosa Donor 29	rectum
15	chr6:28194800-28204200	Strong transcription	Left Ventricle	heart
16	chr6:28194800-28205000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:28195000-28201200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:28195000-28201200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:28195000-28201200	Strong transcription	Ovary	ovary
20	chr6:28195000-28201400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:28195000-28201600	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:28195000-28201600	Strong transcription	Brain Inferior Temporal Lobe	brain
23	chr6:28195000-28201600	Strong transcription	Sigmoid Colon	Sigmoid Colon
24	chr6:28195000-28201600	Strong transcription	HepG2	liver
25	chr6:28195000-28202000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr6:28195000-28202000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:28195000-28202000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr6:28195000-28202000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:28195000-28202000	Strong transcription	Stomach Smooth Muscle	stomach
30	chr6:28195000-28202200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr6:28195000-28202200	Strong transcription	Duodenum Mucosa	Duodenum
32	chr6:28195000-28202200	Strong transcription	Fetal Lung	lung
33	chr6:28195000-28202400	Strong transcription	Cortex derived primary cultured neurospheres	brain
34	chr6:28195000-28202600	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr6:28195000-28202600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:28195000-28202600	Strong transcription	Fetal Stomach	stomach
37	chr6:28195000-28202600	Strong transcription	NHLF	lung
38	chr6:28195000-28202800	Strong transcription	Liver	Liver
39	chr6:28195000-28203000	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr6:28195000-28203000	Strong transcription	Fetal Intestine Large	intestine
41	chr6:28195000-28203200	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:28195000-28203800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:28195200-28200400	Strong transcription	HMEC	breast
44	chr6:28195200-28201000	Strong transcription	Duodenum Smooth Muscle	Duodenum
45	chr6:28195200-28201600	Strong transcription	Skeletal Muscle Female	skeletal muscle
46	chr6:28195200-28202000	Strong transcription	Colon Smooth Muscle	Colon
47	chr6:28195200-28202200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr6:28195200-28202200	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr6:28195200-28202200	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr6:28195200-28202400	Strong transcription	Fetal Muscle Leg	muscle

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