Variant report

Variant	rs4660098
Chromosome Location	chr1:241663476-241663477
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:241644657..241646785-chr1:241661532..241663893,2	K562	blood:
2	chr1:241662653..241671177-chr1:241677044..241684165,13	K562	blood:
3	chr1:241051098..241051987-chr1:241662654..241663742,6	MCF-7	breast:
4	chr1:241051043..241052029-chr1:241662942..241663598,2	K562	blood:
5	chr1:241663389..241665962-chr1:241680854..241682848,2	K562	blood:
6	chr1:241051214..241052121-chr1:241662969..241663847,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000091483	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10802967	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10926503	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10926511	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059375	0.91[AFR][1000 genomes]
rs12059383	0.91[AFR][1000 genomes]
rs12062672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12065955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12072983	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2105079	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2341939	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3765801	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4660102	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57644653	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7540071	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918034	chr1:241072791-242005532	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv997966	chr1:241100739-242087629	Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS 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	40 gene(s)	inside rSNPs	diseases
3	nsv949442	chr1:241432051-241730054	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1002214	chr1:241458939-242099790	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	nsv549460	chr1:241494578-241833287	Genic enhancers Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv1009579	chr1:241499537-241824631	Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv530112	chr1:241522031-241840269	Strong transcription Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv873368	chr1:241533392-242195928	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 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	chr1:241647000-241666600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:241652000-241665200	Weak transcription	Brain Germinal Matrix	brain
3	chr1:241655600-241665200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr1:241655800-241677200	Strong transcription	Liver	Liver
5	chr1:241656000-241665000	Weak transcription	Brain Angular Gyrus	brain
6	chr1:241656000-241666000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr1:241656200-241665000	Weak transcription	Small Intestine	intestine
8	chr1:241656400-241666800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr1:241656800-241670000	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr1:241656800-241677000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr1:241656800-241678200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:241657000-241663600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr1:241657000-241664200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr1:241657000-241669800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:241657000-241670000	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr1:241657000-241675800	Strong transcription	Stomach Smooth Muscle	stomach
17	chr1:241657000-241676000	Strong transcription	Rectal Mucosa Donor 29	rectum
18	chr1:241657000-241676200	Strong transcription	Duodenum Smooth Muscle	Duodenum
19	chr1:241657000-241676400	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr1:241657000-241677000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr1:241657000-241677200	Strong transcription	Adipose Nuclei	Adipose
22	chr1:241657000-241677400	Strong transcription	Fetal Thymus	thymus
23	chr1:241657000-241680000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr1:241657200-241663800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr1:241657200-241668400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr1:241657200-241669800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr1:241657200-241677000	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr1:241657200-241677200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr1:241657200-241677400	Strong transcription	Duodenum Mucosa	Duodenum
30	chr1:241657400-241676600	Strong transcription	Primary B cells from peripheral blood	blood
31	chr1:241657400-241676800	Strong transcription	K562	blood
32	chr1:241657400-241678600	Strong transcription	Dnd41	blood
33	chr1:241657400-241680000	Strong transcription	Primary B cells from cord blood	blood
34	chr1:241657600-241666600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr1:241657600-241667800	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr1:241657600-241668200	Strong transcription	NH-A	brain
37	chr1:241657600-241672000	Strong transcription	HSMM	muscle
38	chr1:241657600-241676600	Strong transcription	Placenta	Placenta
39	chr1:241657600-241677000	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr1:241657800-241667800	Strong transcription	Primary hematopoietic stem cells	blood
41	chr1:241657800-241671400	Weak transcription	Stomach Mucosa	stomach
42	chr1:241658000-241665000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr1:241658200-241671200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr1:241659000-241682000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr1:241659200-241665800	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr1:241659200-241679800	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr1:241659600-241665200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr1:241659600-241679000	Strong transcription	HMEC	breast
49	chr1:241660000-241675800	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr1:241660200-241666800	Weak transcription	Fetal Heart	heart

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