Variant report

Variant	rs61775893
Chromosome Location	chr1:10313083-10313084
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	chr1:10312327..10314244-chr1:10342279..10344001,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000054523	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs35922640	1.00[AMR][1000 genomes]
rs58064995	1.00[AMR][1000 genomes]
rs58762986	1.00[AMR][1000 genomes]
rs59661672	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59843720	1.00[AMR][1000 genomes]
rs60490329	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61775871	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61775873	0.86[AFR][1000 genomes]
rs61775875	1.00[AMR][1000 genomes]
rs61775876	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61775877	1.00[AMR][1000 genomes]
rs61775888	1.00[AMR][1000 genomes]
rs61775891	1.00[AMR][1000 genomes]
rs61775919	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61775921	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61775979	1.00[AMR][1000 genomes]
rs61778374	1.00[AMR][1000 genomes]
rs61778380	1.00[AMR][1000 genomes]
rs61778405	1.00[AMR][1000 genomes]
rs61778417	1.00[AMR][1000 genomes]
rs6541088	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6541093	1.00[AMR][1000 genomes]
rs6661175	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6669000	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6681412	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7524177	1.00[AMR][1000 genomes]
rs7529458	1.00[AMR][1000 genomes]
rs7551816	1.00[AMR][1000 genomes]
rs7553321	1.00[AMR][1000 genomes]
rs9661136	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757722	chr1:10238070-10582554	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv2758920	chr1:10238070-10582554	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv999251	chr1:10276263-10318163	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv545381	chr1:10296452-10423988	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv817370	chr1:10305470-10697150	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv545382	chr1:10309026-10377221	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10272600-10368200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:10277000-10322000	Weak transcription	Spleen	Spleen
3	chr1:10285200-10316000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr1:10289200-10317400	Weak transcription	Liver	Liver
5	chr1:10293000-10322000	Weak transcription	Primary T cells from cord blood	blood
6	chr1:10295600-10316400	Weak transcription	Placenta	Placenta
7	chr1:10295600-10317600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr1:10295800-10322000	Weak transcription	Lung	lung
9	chr1:10296200-10313600	Weak transcription	Fetal Brain Female	brain
10	chr1:10296400-10313200	Weak transcription	Fetal Stomach	stomach
11	chr1:10296400-10316800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr1:10297200-10316200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr1:10297200-10316200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr1:10297400-10316200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr1:10302000-10313200	Weak transcription	Fetal Heart	heart
16	chr1:10302000-10321800	Weak transcription	Esophagus	oesophagus
17	chr1:10302200-10313800	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr1:10302400-10315600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr1:10302600-10313200	Weak transcription	Fetal Kidney	kidney
20	chr1:10303200-10313400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr1:10303200-10316000	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr1:10305200-10313200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr1:10305200-10317200	Weak transcription	Brain Germinal Matrix	brain
24	chr1:10306200-10313400	Weak transcription	Fetal Intestine Large	intestine
25	chr1:10306200-10313600	Weak transcription	Ovary	ovary
26	chr1:10306200-10316000	Weak transcription	Fetal Intestine Small	intestine
27	chr1:10307400-10313200	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr1:10307600-10340400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr1:10307800-10316200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr1:10308400-10316200	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr1:10308600-10314200	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr1:10308800-10314400	Enhancers	Brain Substantia Nigra	brain
33	chr1:10309600-10315400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr1:10309800-10313800	Enhancers	Psoas Muscle	Psoas
35	chr1:10310000-10313400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr1:10310600-10313800	Enhancers	Fetal Muscle Leg	muscle
37	chr1:10310800-10313600	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr1:10310800-10313800	Enhancers	Brain Anterior Caudate	brain
39	chr1:10310800-10315400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
40	chr1:10310800-10315800	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr1:10311000-10314200	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr1:10311000-10322000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr1:10311000-10327600	Weak transcription	Aorta	Aorta
44	chr1:10311200-10314600	Enhancers	Muscle Satellite Cultured Cells	--
45	chr1:10311400-10314600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr1:10311400-10314600	Enhancers	NH-A	brain
47	chr1:10311400-10321800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr1:10311400-10322000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr1:10311600-10313200	Weak transcription	Brain Angular Gyrus	brain
50	chr1:10311600-10313600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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