Variant report

Variant	rs9278028
Chromosome Location	chr6:33341042-33341043
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	chr6:33238517..33240709-chr6:33340722..33342916,2	MCF-7	breast:
2	chr6:33329577..33332620-chr6:33339048..33342098,3	K562	blood:

Variant related genes	Relation type
ENSG00000231500	Chromatin interaction
ENSG00000223501	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1106606	0.90[EUR][1000 genomes]
rs11751696	0.91[EUR][1000 genomes]
rs11753355	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs11756267	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs11756767	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2235982	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41267647	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41271245	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs4231	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs55699469	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs7752202	0.85[EUR][1000 genomes]
rs9277997	0.95[EUR][1000 genomes]
rs9278001	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278004	0.82[EUR][1000 genomes]
rs9278005	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278006	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278007	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9278015	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278016	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9278019	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278027	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9278034	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9278036	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278038	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278039	0.85[EUR][1000 genomes]
rs9278040	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278043	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9278044	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278045	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278046	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278049	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[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	nsv830635	chr6:33238005-33413787	Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
2	nsv830637	chr6:33329365-33510704	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
3	nsv970110	chr6:33331311-33342922	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33339800-33344400	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr6:33340000-33341200	Enhancers	H1 Cell Line	embryonic stem cell
3	chr6:33340000-33344000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:33340200-33341200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr6:33340200-33341200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:33340200-33341200	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr6:33340200-33341400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr6:33340200-33341400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:33340200-33341400	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr6:33340200-33341400	Enhancers	K562	blood
11	chr6:33340200-33342400	Enhancers	Primary hematopoietic stem cells	blood
12	chr6:33340200-33343200	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:33340200-33344000	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr6:33340200-33344400	Enhancers	Primary T cells fromperipheralblood	blood
15	chr6:33340400-33341800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:33340400-33342600	Weak transcription	Osteobl	bone
17	chr6:33340400-33342800	Enhancers	Fetal Thymus	thymus
18	chr6:33340400-33342800	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr6:33340400-33344000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:33340600-33341200	Enhancers	H9 Cell Line	embryonic stem cell
21	chr6:33340600-33341800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr6:33340600-33342000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:33340600-33342000	Weak transcription	Fetal Muscle Leg	muscle
24	chr6:33340600-33342000	Weak transcription	A549	lung
25	chr6:33340800-33341200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:33340800-33341800	Weak transcription	GM12878-XiMat	blood
27	chr6:33340800-33342000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr6:33340800-33343600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr6:33341000-33341800	Weak transcription	Placenta	Placenta
30	chr6:33341000-33342000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr6:33341000-33342000	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:33341000-33342000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr6:33341000-33342000	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr6:33341000-33342200	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr6:33341000-33343000	Weak transcription	Fetal Kidney	kidney
36	chr6:33341000-33343200	Weak transcription	Psoas Muscle	Psoas
37	chr6:33341000-33343400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr6:33341000-33344000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr6:33341000-33352400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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