Variant report

Variant	rs3793660
Chromosome Location	chr9:71942092-71942093
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:71941355..71943004-chr9:71944003..71945586,2	MCF-7	breast:
2	chr9:71940098..71942516-chr9:71992469..71994657,3	MCF-7	breast:
3	chr9:71938510..71941284-chr9:71942079..71947019,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135063	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs11138137	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58806795	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051723	chr9:71398713-71971285	Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv931684	chr9:71417110-71957723	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1049175	chr9:71418242-71986910	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv1035477	chr9:71511927-71959487	Enhancers Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv817406	chr9:71675454-72179318	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv831610	chr9:71846941-72016835	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv893428	chr9:71926658-72027641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71937600-71942800	Active TSS	Fetal Heart	heart
2	chr9:71938800-71942800	Active TSS	Right Atrium	heart
3	chr9:71939000-71942800	Active TSS	Stomach Smooth Muscle	stomach
4	chr9:71939200-71944000	Active TSS	Breast Myoepithelial Primary Cells	Breast
5	chr9:71939400-71942200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr9:71939800-71942200	Active TSS	Right Ventricle	heart
7	chr9:71939800-71942600	Active TSS	Skeletal Muscle Female	skeletal muscle
8	chr9:71941000-71942400	Bivalent/Poised TSS	Fetal Muscle Leg	muscle
9	chr9:71941000-71946800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr9:71941200-71942200	Active TSS	Skeletal Muscle Male	skeletal muscle
11	chr9:71941400-71942200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr9:71941400-71942400	Active TSS	Duodenum Smooth Muscle	Duodenum
13	chr9:71941400-71946600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr9:71941400-71946600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:71941400-71954400	Weak transcription	Brain Anterior Caudate	brain
16	chr9:71941600-71942400	Enhancers	H9 Cell Line	embryonic stem cell
17	chr9:71941600-71942600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr9:71941600-71942600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:71941600-71946600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr9:71941600-71946600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr9:71941600-71946600	Weak transcription	Left Ventricle	heart
22	chr9:71941600-71946600	Weak transcription	Psoas Muscle	Psoas
23	chr9:71941600-71948600	Weak transcription	Pancreas	Pancrea
24	chr9:71941600-71950400	Weak transcription	Gastric	stomach
25	chr9:71941800-71946000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr9:71941800-71946000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr9:71941800-71946200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:71942000-71942200	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
29	chr9:71942000-71942200	Enhancers	Lung	lung
30	chr9:71942000-71942200	Flanking Active TSS	Ovary	ovary

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