Variant report

Variant	rs7497252
Chromosome Location	chr15:53852478-53852479
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10220757	0.80[ASN][1000 genomes]
rs10220852	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10775154	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11070991	0.87[EUR][1000 genomes]
rs1211192	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12440881	0.99[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs12901825	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1906422	0.80[ASN][1000 genomes]
rs1906427	0.82[ASN][1000 genomes]
rs2129770	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4774666	0.82[ASN][1000 genomes]
rs4774667	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59557641	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8034897	0.82[ASN][1000 genomes]
rs9302171	0.81[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	nsv904223	chr15:53665247-54340070	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv904224	chr15:53668018-54210677	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1052235	chr15:53677524-54618723	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv542388	chr15:53677524-54618723	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv833009	chr15:53752901-53935303	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv9267	chr15:53821005-54132612	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv569433	chr15:53828686-53860607	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv904225	chr15:53840665-53878948	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
9	nsv569434	chr15:53845097-53860607	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
10	nsv569435	chr15:53845097-53966805	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53850600-53852600	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr15:53850600-53853200	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr15:53850600-53853800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:53850800-53852800	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr15:53850800-53853600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:53850800-53854000	Enhancers	Fetal Intestine Large	intestine
7	chr15:53850800-53854800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr15:53851000-53852600	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr15:53851000-53852800	Enhancers	Primary hematopoietic stem cells	blood
10	chr15:53851000-53853000	Enhancers	Liver	Liver
11	chr15:53851000-53853000	Enhancers	Fetal Intestine Small	intestine
12	chr15:53851200-53852600	Enhancers	H1 Cell Line	embryonic stem cell
13	chr15:53851200-53852600	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr15:53851200-53852800	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr15:53851200-53853400	Enhancers	Duodenum Mucosa	Duodenum
16	chr15:53851400-53853000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr15:53851600-53852600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr15:53851600-53853400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr15:53851800-53852600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr15:53851800-53852600	Enhancers	Brain Hippocampus Middle	brain
21	chr15:53851800-53852600	Enhancers	Pancreas	Pancrea
22	chr15:53851800-53853000	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr15:53851800-53853200	Enhancers	Fetal Kidney	kidney
24	chr15:53852000-53853800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr15:53852200-53852600	Enhancers	Fetal Lung	lung
26	chr15:53852200-53852600	Enhancers	A549	lung
27	chr15:53852200-53852800	Enhancers	Rectal Mucosa Donor 29	rectum
28	chr15:53852200-53852800	Enhancers	Small Intestine	intestine
29	chr15:53852200-53853000	Enhancers	HepG2	liver
30	chr15:53852200-53853200	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr15:53852400-53853800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr15:53852400-53854200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links