Variant report

Variant	rs28573294
Chromosome Location	chr15:40182056-40182057
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:40180749..40182697-chr15:40183768..40185332,2	MCF-7	breast:
2	chr15:40180749..40182954-chr15:40217728..40220532,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12373003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28376567	0.86[ASN][1000 genomes]
rs28495043	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs41487846	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41497851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4923844	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4924399	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55859027	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62002527	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs62002531	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62002533	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62002534	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv832983	chr15:40098766-40248839	Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40162400-40187000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:40176000-40182200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:40176000-40182600	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr15:40176200-40182400	Enhancers	H9 Cell Line	embryonic stem cell
5	chr15:40176200-40183800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr15:40176200-40185000	Enhancers	H1 Cell Line	embryonic stem cell
7	chr15:40177000-40183000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:40178800-40183600	Weak transcription	Aorta	Aorta
9	chr15:40179200-40182200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr15:40179400-40183200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr15:40179400-40183200	Enhancers	HepG2	liver
12	chr15:40179400-40185200	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr15:40179600-40182200	Enhancers	Rectal Mucosa Donor 31	rectum
14	chr15:40180200-40197000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:40180600-40183000	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr15:40180600-40189200	Weak transcription	HSMMtube	muscle
17	chr15:40180800-40182400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:40180800-40182400	Weak transcription	Liver	Liver
19	chr15:40180800-40182400	Enhancers	Stomach Mucosa	stomach
20	chr15:40180800-40183600	Weak transcription	HSMM	muscle
21	chr15:40180800-40188400	Weak transcription	NHDF-Ad	bronchial
22	chr15:40180800-40197200	Weak transcription	Pancreas	Pancrea
23	chr15:40181000-40184000	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr15:40181000-40187800	Weak transcription	NH-A	brain
25	chr15:40181000-40188400	Weak transcription	NHLF	lung
26	chr15:40181000-40188800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr15:40181200-40183600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:40181200-40188400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:40181400-40182200	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr15:40181400-40183600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr15:40181400-40184400	Weak transcription	Osteobl	bone
32	chr15:40181400-40184800	Weak transcription	K562	blood
33	chr15:40181400-40189000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr15:40181600-40188400	Weak transcription	HUVEC	blood vessel
35	chr15:40181600-40196600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr15:40181600-40196800	Weak transcription	NHEK	skin
37	chr15:40181800-40182800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr15:40182000-40182600	Enhancers	ES-WA7 Cell Line	embryonic stem cell

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