Variant report

Variant	rs7552193
Chromosome Location	chr1:227960654-227960655
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	chr1:227960240..227967392-chr1:227972741..227977657,8	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1056699	0.81[AMR][1000 genomes]
rs1060295	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10916203	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1111046	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1923823	0.81[AMR][1000 genomes]
rs2104245	0.86[AMR][1000 genomes]
rs2236360	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2236361	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6693054	0.86[AMR][1000 genomes]
rs730684	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7522634	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7526184	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7533588	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7534403	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7536765	0.85[AMR][1000 genomes]
rs7539282	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9786978	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9969994	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534002	chr1:227315186-228047108	Bivalent/Poised TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
2	nsv1007479	chr1:227695868-227984466	Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv1010605	chr1:227770415-228332690	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	esv32853	chr1:227880116-228806209	Enhancers Genic enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
5	nsv427952	chr1:227881664-228308629	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
6	nsv826908	chr1:227895386-228691100	Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
7	nsv515496	chr1:227912474-227967938	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	nsv873249	chr1:227920061-228121548	Weak transcription Bivalent Enhancer Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	nsv468238	chr1:227935762-228045748	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv549272	chr1:227935762-228045748	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv1005852	chr1:227957099-228148363	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
12	nsv535319	chr1:227957099-228148363	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 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	chr1:227950800-227963000	Strong transcription	Brain Germinal Matrix	brain
2	chr1:227950800-227974200	Weak transcription	Small Intestine	intestine
3	chr1:227951000-227963200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr1:227951200-227974400	Weak transcription	Right Atrium	heart
5	chr1:227951400-227963200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr1:227951600-227961800	Strong transcription	Fetal Stomach	stomach
7	chr1:227951600-227963600	Weak transcription	HUVEC	blood vessel
8	chr1:227951800-227970600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr1:227952000-227962000	Weak transcription	NHDF-Ad	bronchial
10	chr1:227952200-227962400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr1:227954000-227962600	Strong transcription	Adipose Nuclei	Adipose
12	chr1:227954400-227963800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr1:227954400-227974600	Weak transcription	HMEC	breast
14	chr1:227954600-227963200	Strong transcription	Cortex derived primary cultured neurospheres	brain
15	chr1:227954600-227963200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr1:227954800-227964400	Strong transcription	Primary B cells from peripheral blood	blood
17	chr1:227955000-227962200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr1:227955200-227964800	Strong transcription	Liver	Liver
19	chr1:227955400-227961000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr1:227955600-227961200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr1:227955600-227961800	Weak transcription	Fetal Heart	heart
22	chr1:227955600-227962200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr1:227955600-227965000	Strong transcription	Placenta	Placenta
24	chr1:227955600-227973200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr1:227955600-227974000	Weak transcription	Fetal Brain Male	brain
26	chr1:227955800-227972400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr1:227955800-227974800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr1:227955800-227975200	Weak transcription	Hela-S3	cervix
29	chr1:227956000-227961200	Weak transcription	HSMM	muscle
30	chr1:227956000-227962000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:227956000-227964200	Weak transcription	Fetal Kidney	kidney
32	chr1:227956000-227964600	Strong transcription	Sigmoid Colon	Sigmoid Colon
33	chr1:227956000-227974600	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr1:227956200-227963200	Weak transcription	Psoas Muscle	Psoas
35	chr1:227956200-227968000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr1:227956600-227963000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr1:227956600-227963200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr1:227956600-227973000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr1:227956800-227961200	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr1:227956800-227963600	Weak transcription	GM12878-XiMat	blood
41	chr1:227957000-227961800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr1:227957000-227963200	Weak transcription	Colonic Mucosa	Colon
43	chr1:227957000-227966200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr1:227957000-227968200	Weak transcription	Aorta	Aorta
45	chr1:227957000-227970000	Weak transcription	K562	blood
46	chr1:227957000-227970400	Strong transcription	Fetal Intestine Small	intestine
47	chr1:227957200-227962800	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr1:227957200-227963600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr1:227957400-227963200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr1:227957600-227972800	Weak transcription	Primary neutrophils fromperipheralblood	blood

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