Variant report

Variant	rs4743977
Chromosome Location	chr9:97786629-97786630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97682865..97685291-chr9:97786421..97788402,2	MCF-7	breast:
2	chr9:97785037..97786966-chr9:97789243..97791413,3	MCF-7	breast:
3	chr9:97780463..97782109-chr9:97785824..97787667,2	K562	blood:
4	chr9:97785869..97788341-chr9:97791572..97794035,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1020962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10217441	1.00[CEU][hapmap]
rs1038092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10732407	1.00[CEU][hapmap]
rs10761362	1.00[CEU][hapmap]
rs10761371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993471	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12553869	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12555128	1.00[JPT][hapmap]
rs12555829	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1542108	1.00[CEU][hapmap]
rs1564235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571897	0.85[CHB][hapmap];0.90[AMR][1000 genomes]
rs16911834	1.00[JPT][hapmap]
rs16911856	1.00[JPT][hapmap]
rs1871220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888945	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888946	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2061798	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2061799	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2061801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2104888	1.00[JPT][hapmap];1.00[AFR][1000 genomes]
rs2306207	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs242448	1.00[JPT][hapmap]
rs356685	1.00[JPT][hapmap]
rs356686	1.00[JPT][hapmap]
rs3739748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780560	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4332191	1.00[CEU][hapmap]
rs4743972	1.00[CEU][hapmap]
rs4743975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743976	0.90[AMR][1000 genomes]
rs4743978	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743989	0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4744421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744429	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4744437	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4744440	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs475413	1.00[JPT][hapmap]
rs6479578	1.00[CEU][hapmap]
rs6479589	0.90[AMR][1000 genomes]
rs6479596	0.91[EUR][1000 genomes]
rs6479597	0.91[EUR][1000 genomes]
rs67134693	0.96[ASN][1000 genomes]
rs7019602	1.00[CEU][hapmap]
rs7022739	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7022963	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7023719	1.00[CEU][hapmap]
rs7025100	1.00[CEU][hapmap]
rs7039768	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046900	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs72750335	0.96[ASN][1000 genomes]
rs72750346	0.96[ASN][1000 genomes]
rs72750351	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72750359	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72750367	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72750373	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73540087	1.00[ASN][1000 genomes]
rs7867856	1.00[CEU][hapmap]
rs894426	1.00[CEU][hapmap]
rs9299427	0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 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	chr9:97769000-97787600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:97769600-97790200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr9:97770800-97810000	Weak transcription	Primary T cells from cord blood	blood
4	chr9:97773200-97793200	Weak transcription	Brain Germinal Matrix	brain
5	chr9:97777400-97794200	Weak transcription	Thymus	Thymus
6	chr9:97779400-97789200	Genic enhancers	Liver	Liver
7	chr9:97780200-97788000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr9:97780200-97788200	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr9:97780600-97790800	Weak transcription	Fetal Brain Female	brain
10	chr9:97781200-97787400	Genic enhancers	NHLF	lung
11	chr9:97781200-97793600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:97781400-97793200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr9:97781400-97793600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:97781600-97787000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:97781600-97787200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr9:97782000-97792800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:97782600-97793600	Weak transcription	Primary hematopoietic stem cells	blood
18	chr9:97782800-97787600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr9:97783200-97789400	Enhancers	Brain Substantia Nigra	brain
20	chr9:97783400-97789000	Transcr. at gene 5' and 3'	A549	lung
21	chr9:97783600-97794000	Weak transcription	GM12878-XiMat	blood
22	chr9:97783800-97789000	Genic enhancers	HSMMtube	muscle
23	chr9:97783800-97789600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr9:97784200-97787600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr9:97784200-97789200	Enhancers	Brain Hippocampus Middle	brain
26	chr9:97784400-97787400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr9:97784400-97788800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr9:97784400-97789000	Genic enhancers	NHEK	skin
29	chr9:97784600-97789000	Enhancers	Brain Cingulate Gyrus	brain
30	chr9:97785000-97787000	Enhancers	Small Intestine	intestine
31	chr9:97785000-97787800	Genic enhancers	Fetal Stomach	stomach
32	chr9:97785000-97788400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr9:97785000-97789000	Enhancers	Brain Inferior Temporal Lobe	brain
34	chr9:97785000-97789200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
35	chr9:97785000-97789200	Enhancers	Fetal Kidney	kidney
36	chr9:97785200-97787000	Genic enhancers	HMEC	breast
37	chr9:97785200-97787400	Enhancers	Pancreas	Pancrea
38	chr9:97785200-97787800	Enhancers	Psoas Muscle	Psoas
39	chr9:97785200-97787800	Enhancers	Spleen	Spleen
40	chr9:97785200-97788000	Enhancers	Colonic Mucosa	Colon
41	chr9:97785200-97788200	Enhancers	Fetal Muscle Trunk	muscle
42	chr9:97785200-97788200	Enhancers	Ovary	ovary
43	chr9:97785200-97788200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
44	chr9:97785200-97788800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr9:97785200-97788800	Enhancers	Adipose Nuclei	Adipose
46	chr9:97785200-97789000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr9:97785200-97789000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr9:97785200-97789000	Enhancers	Brain Anterior Caudate	brain
49	chr9:97785200-97789000	Genic enhancers	Fetal Intestine Small	intestine
50	chr9:97785400-97787400	Enhancers	Rectal Mucosa Donor 31	rectum

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