Variant report

Variant	rs12352713
Chromosome Location	chr9:71324286-71324287
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:71318506..71320929-chr9:71321155..71324459,4	K562	blood:
2	chr9:71317469..71321528-chr9:71322199..71324795,3	MCF-7	breast:
3	chr9:71320513..71323388-chr9:71323733..71326341,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107242	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10114112	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10115067	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10115418	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10116755	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10123673	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10124349	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10125301	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10869224	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10869249	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10869250	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11143558	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12000046	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58093852	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7042717	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[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	nsv1026962	chr9:71130848-71357605	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1032210	chr9:71130848-71511987	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	esv2422258	chr9:71234845-71663340	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1017903	chr9:71276951-71690579	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	esv2757339	chr9:71291107-71353743	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv2759693	chr9:71291107-71353743	Bivalent Enhancer Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv2752385	chr9:71304465-71332240	Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71321800-71329200	Weak transcription	Gastric	stomach
2	chr9:71321800-71329400	Weak transcription	Lung	lung
3	chr9:71322000-71324800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr9:71322000-71329800	Weak transcription	Pancreas	Pancrea
5	chr9:71322000-71349400	Weak transcription	Aorta	Aorta
6	chr9:71322200-71324400	Enhancers	Primary B cells from peripheral blood	blood
7	chr9:71322200-71324800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr9:71322200-71329400	Weak transcription	Left Ventricle	heart
9	chr9:71322200-71335000	Weak transcription	Placenta	Placenta
10	chr9:71322400-71325000	Enhancers	Fetal Heart	heart
11	chr9:71322400-71325800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr9:71322600-71324800	Weak transcription	Brain Germinal Matrix	brain
13	chr9:71322600-71327400	Enhancers	HepG2	liver
14	chr9:71322600-71329600	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr9:71322600-71329800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr9:71322800-71325200	Enhancers	Sigmoid Colon	Sigmoid Colon
17	chr9:71322800-71326200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr9:71322800-71326800	Weak transcription	Right Ventricle	heart
19	chr9:71322800-71333400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr9:71323000-71326200	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:71323400-71324400	Weak transcription	Primary hematopoietic stem cells	blood
22	chr9:71323400-71324400	Weak transcription	K562	blood
23	chr9:71323400-71326200	Enhancers	Duodenum Mucosa	Duodenum
24	chr9:71323400-71331800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr9:71323600-71335800	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr9:71323800-71324600	Flanking Active TSS	GM12878-XiMat	blood
27	chr9:71324000-71325000	Genic enhancers	Fetal Intestine Large	intestine
28	chr9:71324000-71325000	Genic enhancers	Fetal Intestine Small	intestine
29	chr9:71324000-71329200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr9:71324200-71324400	Enhancers	H1 Cell Line	embryonic stem cell
31	chr9:71324200-71324400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr9:71324200-71324400	Enhancers	Colonic Mucosa	Colon
33	chr9:71324200-71324400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
34	chr9:71324200-71324600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:71324200-71324600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
36	chr9:71324200-71324600	Bivalent Enhancer	Small Intestine	intestine
37	chr9:71324200-71325000	Genic enhancers	Rectal Mucosa Donor 31	rectum
38	chr9:71324200-71325000	Enhancers	Right Atrium	heart
39	chr9:71324200-71325200	Genic enhancers	Primary B cells from cord blood	blood
40	chr9:71324200-71326200	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links