Variant report

Variant	rs1815720
Chromosome Location	chr10:43361401-43361402
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:43360364..43363685-chr10:43571830..43575400,3	MCF-7	breast:
2	chr10:43359656..43362276-chr10:43538559..43540315,2	MCF-7	breast:
3	chr10:43361133..43364035-chr10:43632950..43635001,2	MCF-7	breast:
4	chr10:43355311..43356829-chr10:43360308..43362900,2	MCF-7	breast:
5	chr10:43360509..43362298-chr10:43627787..43629550,2	MCF-7	breast:
6	chr10:43360554..43363791-chr10:43570974..43576100,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165731	Chromatin interaction
ENSG00000273008	Chromatin interaction
ENSG00000169826	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1815715	0.87[ASN][1000 genomes]
rs1815718	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1815721	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2092265	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2142989	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2744068	0.87[ASN][1000 genomes]
rs2744074	0.88[ASN][1000 genomes]
rs2744079	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795506	0.90[ASN][1000 genomes]
rs2796552	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796554	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2796556	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2796557	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2796558	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2796559	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2796560	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2796561	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2796577	0.87[ASN][1000 genomes]
rs3121276	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3121277	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs788243	0.96[ASN][1000 genomes]
rs788246	0.81[ASN][1000 genomes]
rs788247	0.95[ASN][1000 genomes]
rs788249	0.95[ASN][1000 genomes]
rs788284	0.96[ASN][1000 genomes]
rs788285	0.99[ASN][1000 genomes]
rs788287	0.99[ASN][1000 genomes]
rs788288	0.98[ASN][1000 genomes]
rs788289	0.98[ASN][1000 genomes]
rs788292	0.90[ASN][1000 genomes]
rs788293	0.98[ASN][1000 genomes]
rs947546	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550672	chr10:42753190-43441729	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1042764	chr10:42846383-43511712	Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1050394	chr10:42890663-43604956	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
4	nsv540573	chr10:42890663-43604956	Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv534548	chr10:42890664-43729688	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
6	esv2758216	chr10:42965131-43510191	Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
7	esv2759746	chr10:42965131-43510191	Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
8	nsv1047838	chr10:43234590-43379219	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
9	nsv430159	chr10:43291894-43946294	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
10	nsv947892	chr10:43358233-43368929	Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43356800-43361600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr10:43360200-43361600	Weak transcription	Pancreas	Pancrea
3	chr10:43361200-43361600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:43361200-43361600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:43361200-43361600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr10:43361200-43361600	Enhancers	HMEC	breast
7	chr10:43361200-43361800	Bivalent Enhancer	Fetal Brain Male	brain
8	chr10:43361200-43362000	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr10:43361200-43362000	Bivalent Enhancer	Placenta	Placenta
10	chr10:43361400-43361600	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr10:43361400-43361600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr10:43361400-43361800	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
13	chr10:43361400-43361800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
14	chr10:43361400-43361800	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
15	chr10:43361400-43361800	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr10:43361400-43361800	Bivalent Enhancer	Fetal Muscle Leg	muscle
17	chr10:43361400-43362000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
18	chr10:43361400-43362200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr10:43361400-43362600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:43361400-43362600	Bivalent/Poised TSS	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links