Variant report

Variant	rs3793751
Chromosome Location	chr10:97377901-97377902
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr10:97377861-97378142	T-47D	breast:	n/a	n/a
2	GATA3	chr10:97377878-97378223	T-47D	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97375956..97378752-chr10:97415049..97416983,2	MCF-7	breast:

Variant related genes	Relation type
ALDH18A1	TF binding region
ENSG00000059573	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11592789	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes]
rs11592809	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593038	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11593693	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11594687	0.81[EUR][1000 genomes]
rs11595122	1.00[CEU][hapmap]
rs11595248	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11598540	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12354465	1.00[CHB][hapmap]
rs12357513	1.00[CHB][hapmap]
rs12359410	1.00[CHB][hapmap]
rs12761112	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12761960	1.00[CEU][hapmap]
rs12763743	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12765494	0.87[EUR][1000 genomes]
rs12767650	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12770313	1.00[CEU][hapmap]
rs12770849	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12774334	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12775780	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12779833	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12780375	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12781327	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12782273	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1409710	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2275272	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2296690	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3176886	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3176888	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34296389	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34332904	0.88[EUR][1000 genomes]
rs34460407	0.81[EUR][1000 genomes]
rs34533159	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34832675	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34847853	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35700869	1.00[CEU][hapmap]
rs35712039	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35822210	0.80[EUR][1000 genomes]
rs3765571	1.00[ASN][1000 genomes]
rs3793746	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs57670810	0.90[EUR][1000 genomes]
rs67783179	0.80[EUR][1000 genomes]
rs67857430	0.81[EUR][1000 genomes]
rs7073937	1.00[CHB][hapmap]
rs71482367	0.86[EUR][1000 genomes]
rs71482376	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71482377	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71482378	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats 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	15 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	chr10:97364000-97382000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
2	chr10:97364000-97409200	Strong transcription	Primary T cells from cord blood	blood
3	chr10:97364000-97411000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr10:97364400-97378600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:97364400-97378600	Strong transcription	Fetal Brain Female	brain
6	chr10:97364400-97378600	Strong transcription	Spleen	Spleen
7	chr10:97364400-97379000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr10:97364400-97403200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr10:97364600-97378600	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr10:97364600-97378600	Strong transcription	Pancreas	Pancrea
11	chr10:97364600-97378800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr10:97364600-97378800	Strong transcription	NH-A	brain
13	chr10:97364600-97379000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr10:97364600-97379000	Strong transcription	GM12878-XiMat	blood
15	chr10:97364600-97388400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:97364800-97378600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr10:97364800-97378600	Strong transcription	Gastric	stomach
18	chr10:97364800-97378800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr10:97364800-97378800	Strong transcription	Muscle Satellite Cultured Cells	--
20	chr10:97364800-97378800	Strong transcription	Osteobl	bone
21	chr10:97364800-97379000	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr10:97364800-97403400	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr10:97364800-97411000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr10:97365000-97378200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr10:97365000-97378400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr10:97365000-97378600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr10:97365000-97378600	Strong transcription	Brain Germinal Matrix	brain
28	chr10:97365000-97378800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr10:97365000-97378800	Strong transcription	Adipose Nuclei	Adipose
30	chr10:97365000-97379000	Strong transcription	Dnd41	blood
31	chr10:97365000-97403000	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr10:97365000-97403400	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr10:97365200-97378600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr10:97365200-97378800	Strong transcription	H1 Cell Line	embryonic stem cell
35	chr10:97365200-97378800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
36	chr10:97365200-97379000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr10:97365200-97379200	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr10:97365200-97379200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr10:97365200-97379800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr10:97365200-97382200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
41	chr10:97365400-97378600	Strong transcription	Lung	lung
42	chr10:97365400-97378800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr10:97365400-97378800	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr10:97365400-97378800	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr10:97365400-97378800	Strong transcription	NHEK	skin
46	chr10:97365400-97379000	Strong transcription	Fetal Muscle Trunk	muscle
47	chr10:97365600-97378800	Strong transcription	Fetal Muscle Leg	muscle
48	chr10:97365600-97380800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr10:97365800-97378600	Strong transcription	Brain Anterior Caudate	brain
50	chr10:97365800-97378800	Strong transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links