Variant report

Variant	rs10470379
Chromosome Location	chr3:110404480-110404481
allele	A/C
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	MAX	chr3:110404435-110404902	H1-hESC	embryonic stem cell:	n/a	n/a
2	SP1	chr3:110404262-110405024	H1-hESC	embryonic stem cell:	n/a	n/a
3	MAX	chr3:110404398-110404781	H1-hESC	embryonic stem cell:	n/a	n/a
4	HDAC2	chr3:110404352-110404899	H1-hESC	embryonic stem cell:	n/a	chr3:110404695-110404703

Variant related genes	Relation type
ENSG00000244722	TF binding region

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs28568711	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28734003	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4234396	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4234397	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4234399	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4317132	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4408891	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4461448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4493460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4507291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4515084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4521263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4605580	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4635740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4682015	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4682016	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57330466	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57708443	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59933690	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60260569	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60278991	1.00[AMR][1000 genomes]
rs60455967	1.00[AMR][1000 genomes]
rs6762712	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7614893	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7637213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9816637	1.00[AMR][1000 genomes]
rs9818929	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9822353	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9827059	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9836317	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838031	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838218	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838405	1.00[AMR][1000 genomes]
rs9843913	1.00[AMR][1000 genomes]
rs9844680	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855005	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9857475	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9876520	1.00[AMR][1000 genomes]
rs9880132	1.00[AMR][1000 genomes]
rs9882383	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883414	1.00[AMR][1000 genomes]
rs9883442	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520365	chr3:110155172-110441165	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1001144	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv536687	chr3:110158316-110431113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1001810	chr3:110158316-110522247	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1011034	chr3:110209344-110559021	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv536689	chr3:110209344-110559021	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv829673	chr3:110378069-110530815	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv3941	chr3:110385790-110430523	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110398400-110404600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:110400000-110404600	Weak transcription	Fetal Brain Male	brain
3	chr3:110402400-110406800	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr3:110402600-110404600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr3:110402600-110404800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:110402600-110406600	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr3:110402800-110406200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:110403000-110405600	Enhancers	Fetal Lung	lung
9	chr3:110403200-110404800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr3:110403600-110404600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr3:110403600-110405400	Weak transcription	HUVEC	blood vessel
12	chr3:110403800-110405000	Enhancers	Liver	Liver
13	chr3:110404000-110405600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:110404200-110405200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
15	chr3:110404200-110406200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr3:110404400-110405000	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr3:110404400-110405000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:110404400-110405000	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr3:110404400-110405200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:110404400-110405200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr3:110404400-110405400	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links