Variant report

Variant	rs28913887
Chromosome Location	chr1:179078344-179078345
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:179075971..179079448-chr1:179095385..179098448,3	MCF-7	breast:
2	chr1:179072158..179075284-chr1:179075510..179079564,3	K562	blood:
3	chr1:179076910..179079284-chr1:179198246..179199941,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143322	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs28913889	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28914517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28990070	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3813638	1.00[YRI][hapmap]
rs6425512	1.00[YRI][hapmap]
rs7544801	1.00[YRI][hapmap]

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	nsv1002511	chr1:179077914-179089842	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179053200-179096000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:179054000-179079400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr1:179059200-179096400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr1:179059400-179090400	Strong transcription	HUVEC	blood vessel
5	chr1:179061400-179090400	Strong transcription	HSMM	muscle
6	chr1:179062000-179088000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:179063200-179112000	Weak transcription	Fetal Kidney	kidney
8	chr1:179064800-179079200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr1:179064800-179097800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr1:179069400-179080400	Strong transcription	HMEC	breast
11	chr1:179070400-179087200	Weak transcription	Psoas Muscle	Psoas
12	chr1:179071400-179090400	Strong transcription	NHDF-Ad	bronchial
13	chr1:179072000-179090400	Strong transcription	Osteobl	bone
14	chr1:179072200-179090000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:179074200-179088200	Strong transcription	NHEK	skin
16	chr1:179074200-179091000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:179074400-179088200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr1:179074600-179083000	Strong transcription	Primary T cells from cord blood	blood
19	chr1:179075200-179091200	Strong transcription	NHLF	lung
20	chr1:179075400-179080000	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr1:179075400-179084200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr1:179075400-179091000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr1:179075400-179091400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr1:179075400-179096200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr1:179075600-179080000	Strong transcription	Hela-S3	cervix
26	chr1:179075600-179080200	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr1:179075600-179081000	Strong transcription	Fetal Brain Female	brain
28	chr1:179075600-179081800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr1:179075600-179082000	Strong transcription	Cortex derived primary cultured neurospheres	brain
30	chr1:179075600-179082200	Strong transcription	Placenta	Placenta
31	chr1:179075600-179082800	Strong transcription	Stomach Smooth Muscle	stomach
32	chr1:179075600-179084000	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr1:179075600-179089200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr1:179075800-179080000	Strong transcription	Placenta Amnion	Placenta Amnion
35	chr1:179075800-179081000	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr1:179075800-179081600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr1:179075800-179082400	Strong transcription	Brain Angular Gyrus	brain
38	chr1:179075800-179082400	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr1:179075800-179082800	Strong transcription	Fetal Intestine Large	intestine
40	chr1:179075800-179082800	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr1:179075800-179083600	Strong transcription	Lung	lung
42	chr1:179075800-179084600	Strong transcription	A549	lung
43	chr1:179075800-179089600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr1:179076000-179078600	Enhancers	Fetal Heart	heart
45	chr1:179076000-179080000	Strong transcription	Brain Anterior Caudate	brain
46	chr1:179076000-179080000	Strong transcription	Rectal Smooth Muscle	rectum
47	chr1:179076000-179080800	Strong transcription	Brain Inferior Temporal Lobe	brain
48	chr1:179076000-179081600	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr1:179076000-179081600	Strong transcription	Primary B cells from peripheral blood	blood
50	chr1:179076000-179081600	Strong transcription	Ovary	ovary

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