Variant report

Variant	rs28491466
Chromosome Location	chr1:155516675-155516676
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:155515123..155516751-chr1:155518229..155520360,2	K562	blood:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10158037	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10158433	1.00[ASW][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10158907	1.00[MEX][hapmap]
rs13373934	1.00[MEX][hapmap]
rs13375379	1.00[ASW][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16836851	0.88[ASW][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16836867	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16836868	0.88[ASW][hapmap];0.82[LWK][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes]
rs28438500	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28452675	0.80[AFR][1000 genomes]
rs28507559	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56035547	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56770523	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57334798	0.96[AFR][1000 genomes]
rs57519519	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57807227	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58086206	0.85[AFR][1000 genomes]
rs58621120	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58850753	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59633238	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59815288	1.00[AMR][1000 genomes]
rs59913551	0.94[AFR][1000 genomes]
rs59992966	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60568057	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60818259	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61403978	0.91[AFR][1000 genomes]
rs61631408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6427277	0.86[AFR][1000 genomes]
rs6658401	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6659913	0.91[YRI][hapmap];0.82[AFR][1000 genomes]
rs6665660	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6665939	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6669216	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6670530	0.88[LWK][hapmap];0.86[YRI][hapmap]
rs6673172	1.00[MEX][hapmap]
rs6692952	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72993428	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72993486	0.85[AFR][1000 genomes]
rs72995115	0.88[AFR][1000 genomes]
rs72995140	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72995165	0.89[AFR][1000 genomes]
rs72995166	0.93[AFR][1000 genomes]
rs72995171	0.97[AFR][1000 genomes]
rs72995173	0.93[AFR][1000 genomes]
rs72995177	1.00[AFR][1000 genomes]
rs73008931	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008968	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008999	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73010906	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73010909	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73010921	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7517139	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7517777	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7519697	1.00[MEX][hapmap]
rs7532714	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7541017	0.86[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7549653	0.83[AFR][1000 genomes]
rs959485	1.00[MEX][hapmap]
rs9988453	1.00[ASW][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9988540	0.93[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529709	chr1:155154933-155757219	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
2	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	esv1799856	chr1:155305059-155534616	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1795662	chr1:155305059-155540660	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	esv1803551	chr1:155334933-155522572	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv872468	chr1:155413304-155549562	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
7	esv3431739	chr1:155514331-155664183	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155476400-155518200	Weak transcription	HMEC	breast
2	chr1:155478400-155518200	Weak transcription	Stomach Smooth Muscle	stomach
3	chr1:155483200-155524400	Weak transcription	Fetal Brain Female	brain
4	chr1:155483400-155528600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr1:155489800-155529400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr1:155491200-155521800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr1:155491400-155523400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr1:155496600-155518400	Weak transcription	HSMM	muscle
9	chr1:155496600-155529800	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr1:155499600-155517000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:155500000-155524400	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr1:155500200-155519800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr1:155501800-155523200	Weak transcription	Brain Hippocampus Middle	brain
14	chr1:155502000-155518000	Weak transcription	Brain Anterior Caudate	brain
15	chr1:155502000-155518800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr1:155503400-155519600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr1:155503800-155523200	Weak transcription	Fetal Thymus	thymus
18	chr1:155505400-155518200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:155505600-155523400	Weak transcription	Placenta	Placenta
20	chr1:155506400-155523400	Weak transcription	Primary hematopoietic stem cells	blood
21	chr1:155506400-155529400	Weak transcription	Osteobl	bone
22	chr1:155506400-155529600	Weak transcription	Fetal Lung	lung
23	chr1:155506600-155516800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr1:155506800-155518000	Weak transcription	Fetal Muscle Trunk	muscle
25	chr1:155507000-155530200	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr1:155507400-155528000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr1:155509600-155517400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr1:155510600-155518000	Weak transcription	Right Atrium	heart
29	chr1:155510600-155530200	Weak transcription	Right Ventricle	heart
30	chr1:155510800-155523600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr1:155510800-155524400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr1:155510800-155528000	Weak transcription	Small Intestine	intestine
33	chr1:155510800-155528400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr1:155511000-155518000	Weak transcription	K562	blood
35	chr1:155511000-155529200	Weak transcription	Duodenum Mucosa	Duodenum
36	chr1:155511000-155529400	Weak transcription	HepG2	liver
37	chr1:155511400-155529800	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr1:155511800-155517000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr1:155511800-155518200	Weak transcription	Colon Smooth Muscle	Colon
40	chr1:155511800-155518600	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr1:155511800-155527600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr1:155511800-155528400	Weak transcription	Primary T cells from cord blood	blood
43	chr1:155512000-155518200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr1:155512000-155518400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr1:155513000-155517600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr1:155513200-155524400	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr1:155513600-155518000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr1:155513600-155518000	Weak transcription	Ovary	ovary
49	chr1:155513600-155520600	Weak transcription	Fetal Muscle Leg	muscle
50	chr1:155513800-155518600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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