Variant report

Variant	rs1777275
Chromosome Location	chr1:57032468-57032469
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:57015989..57018935-chr1:57031658..57034048,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1041604	0.86[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10789030	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12126955	1.00[CEU][hapmap];0.85[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2065553	0.86[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2065555	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2404719	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2404983	1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4469733	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6588640	1.00[CEU][hapmap];0.88[TSI][hapmap]
rs7545642	0.84[MEX][hapmap]
rs7549799	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57016000-57038600	Weak transcription	HSMMtube	muscle
2	chr1:57017400-57035400	Weak transcription	Esophagus	oesophagus
3	chr1:57017400-57035400	Weak transcription	Fetal Thymus	thymus
4	chr1:57017400-57039400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr1:57017800-57040800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:57021400-57032800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:57023800-57033000	Enhancers	Brain Hippocampus Middle	brain
8	chr1:57025600-57040000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr1:57026000-57033200	Enhancers	Fetal Intestine Large	intestine
10	chr1:57026200-57033000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:57026800-57033000	Enhancers	Fetal Intestine Small	intestine
12	chr1:57027000-57034200	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr1:57027400-57034200	Enhancers	Brain Anterior Caudate	brain
14	chr1:57027400-57034400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr1:57027600-57032800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr1:57027600-57033000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr1:57027800-57032800	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr1:57027800-57033000	Enhancers	H1 Cell Line	embryonic stem cell
19	chr1:57027800-57033200	Enhancers	Brain Cingulate Gyrus	brain
20	chr1:57027800-57034400	Enhancers	Brain Substantia Nigra	brain
21	chr1:57028000-57032600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr1:57028000-57033000	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr1:57028000-57035400	Weak transcription	Colonic Mucosa	Colon
24	chr1:57028200-57032800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr1:57028200-57032800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:57028200-57033000	Enhancers	Brain Angular Gyrus	brain
27	chr1:57028400-57032600	Enhancers	Adipose Nuclei	Adipose
28	chr1:57028400-57033000	Enhancers	Duodenum Mucosa	Duodenum
29	chr1:57028600-57033000	Enhancers	Colon Smooth Muscle	Colon
30	chr1:57028800-57034400	Weak transcription	Lung	lung
31	chr1:57028800-57035400	Weak transcription	Gastric	stomach
32	chr1:57029200-57032800	Weak transcription	Fetal Brain Male	brain
33	chr1:57029400-57032800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr1:57029400-57042200	Weak transcription	Thymus	Thymus
35	chr1:57030000-57035400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr1:57030400-57033000	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr1:57030600-57032800	Genic enhancers	Muscle Satellite Cultured Cells	--
38	chr1:57030600-57033000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr1:57030600-57033000	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr1:57030800-57033000	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr1:57030800-57036800	Weak transcription	Rectal Smooth Muscle	rectum
42	chr1:57031000-57032800	Enhancers	iPS-15b Cell Line	embryonic stem cell
43	chr1:57031000-57033000	Enhancers	iPS-18 Cell Line	embryonic stem cell
44	chr1:57031000-57033600	Enhancers	HUES6 Cell Line	embryonic stem cell
45	chr1:57031000-57035400	Weak transcription	Primary B cells from peripheral blood	blood
46	chr1:57031400-57032800	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr1:57031400-57033000	Flanking Active TSS	Liver	Liver
48	chr1:57031600-57032600	Enhancers	Fetal Heart	heart
49	chr1:57031600-57032800	Enhancers	Small Intestine	intestine
50	chr1:57031600-57033000	Enhancers	Fetal Kidney	kidney

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