Variant report

Variant	rs6495045
Chromosome Location	chr15:73353124-73353125
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:73340283..73347207-chr15:73351084..73357651,9	MCF-7	breast:
2	chr15:73352462..73355061-chr15:73359053..73360956,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067141	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1017808	0.82[EUR][1000 genomes]
rs11072407	0.83[EUR][1000 genomes]
rs11072408	0.81[EUR][1000 genomes]
rs1119251	0.82[ASN][1000 genomes]
rs11634045	0.82[EUR][1000 genomes]
rs11636981	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11856537	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12594776	0.82[EUR][1000 genomes]
rs12595434	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1382782	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1564347	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16957683	0.82[EUR][1000 genomes]
rs1904335	0.80[ASN][1000 genomes]
rs2061890	0.82[EUR][1000 genomes]
rs2415142	0.83[ASN][1000 genomes]
rs2415145	0.81[EUR][1000 genomes]
rs2415146	0.81[EUR][1000 genomes]
rs28742992	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35348961	0.80[EUR][1000 genomes]
rs35391014	0.83[EUR][1000 genomes]
rs36072085	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4776623	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4777585	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4777587	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4777588	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4777592	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59628124	0.82[EUR][1000 genomes]
rs6416503	0.80[ASN][1000 genomes]
rs6495046	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495050	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6495051	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6495052	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6495053	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6495057	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6495058	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7168555	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7184025	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7495084	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9806269	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73346400-73353400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:73346400-73355000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:73346400-73355400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr15:73346800-73353200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr15:73347000-73358800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr15:73347200-73354400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr15:73347600-73354200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr15:73348200-73355600	Weak transcription	Fetal Lung	lung
9	chr15:73348600-73353400	Weak transcription	Duodenum Mucosa	Duodenum
10	chr15:73348600-73353600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr15:73348600-73355000	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr15:73348800-73353200	Weak transcription	Fetal Intestine Large	intestine
13	chr15:73349000-73353600	Weak transcription	Psoas Muscle	Psoas
14	chr15:73349200-73353800	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr15:73349200-73355000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr15:73349200-73355000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr15:73349400-73353200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr15:73349400-73353400	Weak transcription	Brain Hippocampus Middle	brain
19	chr15:73349400-73353400	Weak transcription	Fetal Brain Female	brain
20	chr15:73349400-73353600	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr15:73349400-73354400	Weak transcription	Brain Anterior Caudate	brain
22	chr15:73349400-73367000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr15:73349800-73353600	Weak transcription	Brain Angular Gyrus	brain
24	chr15:73351000-73355000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:73352000-73353200	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr15:73352000-73365000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:73352600-73353200	Strong transcription	Fetal Intestine Small	intestine
28	chr15:73353000-73353800	Enhancers	Aorta	Aorta
29	chr15:73353000-73354000	Enhancers	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links