Variant report

Variant	rs10923929
Chromosome Location	chr1:120505996-120505997
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:120505566..120508296-chr1:120511053..120512742,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10494235	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10923926	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493695	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493696	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1493698	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453042	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453044	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453055	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2453056	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2487568	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493398	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493410	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493411	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493416	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2493419	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493420	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2641316	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2641338	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2793823	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2793827	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2793830	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4659250	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5025718	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6688004	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs699780	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835573	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835574	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs947273	0.92[AMR][1000 genomes];0.98[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	nsv428201	chr1:120267313-120697156	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv2757750	chr1:120267313-121226013	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	esv2758965	chr1:120267313-121226013	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	esv1816057	chr1:120469050-120697156	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats 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 target site	10 gene(s)	inside rSNPs	diseases
5	esv1818054	chr1:120469050-120697156	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	esv1844863	chr1:120469050-120697156	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	esv1850218	chr1:120469050-120697156	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv427730	chr1:120469050-120697156	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:120468400-120506200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:120468400-120507400	Weak transcription	Right Ventricle	heart
3	chr1:120468600-120532800	Weak transcription	Stomach Mucosa	stomach
4	chr1:120476400-120507400	Weak transcription	Brain Angular Gyrus	brain
5	chr1:120478800-120508800	Weak transcription	A549	lung
6	chr1:120478800-120511000	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr1:120479000-120511000	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr1:120480400-120507800	Weak transcription	Fetal Brain Female	brain
9	chr1:120480600-120507400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr1:120484400-120506000	Weak transcription	Gastric	stomach
11	chr1:120488800-120510400	Strong transcription	Primary B cells from peripheral blood	blood
12	chr1:120490000-120512400	Strong transcription	Primary T cells fromperipheralblood	blood
13	chr1:120490000-120514400	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr1:120490000-120517600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr1:120490200-120512600	Strong transcription	Primary T cells from cord blood	blood
16	chr1:120490200-120512600	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr1:120490200-120521000	Strong transcription	Primary B cells from cord blood	blood
18	chr1:120490400-120512600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr1:120490800-120515000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr1:120491200-120510800	Weak transcription	Brain Germinal Matrix	brain
21	chr1:120491200-120538800	Weak transcription	Fetal Brain Male	brain
22	chr1:120493400-120507800	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr1:120493600-120512200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr1:120494200-120506200	Weak transcription	Fetal Intestine Small	intestine
25	chr1:120495800-120506000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr1:120496200-120506000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr1:120497400-120506200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr1:120497800-120506000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr1:120497800-120506400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr1:120497800-120508800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr1:120498000-120506000	Weak transcription	Duodenum Mucosa	Duodenum
32	chr1:120498000-120506000	Weak transcription	Lung	lung
33	chr1:120498000-120506000	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr1:120498000-120506200	Weak transcription	Spleen	Spleen
35	chr1:120498000-120507600	Weak transcription	Pancreas	Pancrea
36	chr1:120498000-120507800	Weak transcription	Ovary	ovary
37	chr1:120498000-120507800	Weak transcription	Small Intestine	intestine
38	chr1:120498000-120508000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr1:120498000-120508600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr1:120498000-120508600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr1:120498200-120506000	Weak transcription	Hela-S3	cervix
42	chr1:120498200-120506200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr1:120499200-120506000	Enhancers	Liver	Liver
44	chr1:120499200-120511600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr1:120499400-120514600	Strong transcription	Fetal Muscle Trunk	muscle
46	chr1:120500200-120515400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr1:120500600-120506600	Strong transcription	Skeletal Muscle Female	skeletal muscle
48	chr1:120500600-120510800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr1:120500800-120510800	Strong transcription	Placenta	Placenta
50	chr1:120502200-120506000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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