Variant report

Variant	rs1823552
Chromosome Location	chr15:42328028-42328029
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:42326859..42328863-chr15:42337249..42339114,2	MCF-7	breast:
2	chr15:42326664..42329520-chr15:42335867..42337408,2	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11629515	0.88[EUR][1000 genomes]
rs11633848	0.91[EUR][1000 genomes]
rs11634009	0.91[EUR][1000 genomes]
rs11638234	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12898459	0.89[AFR][1000 genomes]
rs12901016	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12904287	0.81[ASN][1000 genomes]
rs12914009	0.86[ASN][1000 genomes]
rs1622221	0.81[EUR][1000 genomes]
rs1668555	0.80[ASN][1000 genomes]
rs1668556	0.80[ASN][1000 genomes]
rs1668560	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1668561	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1668567	0.80[ASN][1000 genomes]
rs1668581	0.80[ASN][1000 genomes]
rs1668582	0.80[ASN][1000 genomes]
rs1668583	0.80[ASN][1000 genomes]
rs1668584	0.80[ASN][1000 genomes]
rs1704353	0.80[ASN][1000 genomes]
rs1704359	0.80[ASN][1000 genomes]
rs1704362	0.80[ASN][1000 genomes]
rs1704366	0.80[ASN][1000 genomes]
rs1704367	0.80[ASN][1000 genomes]
rs1704373	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1704376	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2598465	0.90[ASN][1000 genomes]
rs2598466	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2598467	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2665200	0.80[ASN][1000 genomes]
rs2665202	0.90[ASN][1000 genomes]
rs2665203	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2665205	0.82[EUR][1000 genomes]
rs2665207	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2665210	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2665211	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2724935	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2724937	0.92[ASN][1000 genomes]
rs2724939	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2724940	0.92[ASN][1000 genomes]
rs2724941	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2724942	0.82[EUR][1000 genomes]
rs2724944	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2724945	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34595238	0.80[ASN][1000 genomes]
rs35670495	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55638864	0.88[EUR][1000 genomes]
rs56171410	0.88[EUR][1000 genomes]
rs62004270	0.80[ASN][1000 genomes]
rs7166079	0.81[ASN][1000 genomes]
rs7181618	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs937992	0.80[ASN][1000 genomes]
rs937993	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
3	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
4	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
6	nsv904130	chr15:42323591-42336018	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42325400-42328400	Weak transcription	Right Ventricle	heart
2	chr15:42325400-42328800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr15:42326000-42329000	Enhancers	Primary B cells from cord blood	blood
4	chr15:42326200-42337200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr15:42326600-42328200	Flanking Active TSS	GM12878-XiMat	blood
6	chr15:42326600-42328400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr15:42326800-42328600	Enhancers	Rectal Mucosa Donor 29	rectum
8	chr15:42327000-42328200	Enhancers	Primary neutrophils fromperipheralblood	blood
9	chr15:42327000-42328400	Flanking Active TSS	NHEK	skin
10	chr15:42327000-42329400	Enhancers	Primary B cells from peripheral blood	blood
11	chr15:42327200-42328200	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr15:42327200-42328200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr15:42327200-42328800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr15:42327200-42329000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr15:42327400-42328200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr15:42327400-42328200	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr15:42327400-42328200	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr15:42327400-42328200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr15:42327400-42328200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr15:42327400-42328200	Enhancers	Fetal Intestine Large	intestine
21	chr15:42327400-42328400	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr15:42327400-42328600	Enhancers	Primary T helper cells fromperipheralblood	blood
23	chr15:42327400-42328600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:42327400-42328600	Enhancers	Colonic Mucosa	Colon
25	chr15:42327400-42329000	Enhancers	Spleen	Spleen
26	chr15:42327600-42328200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:42327600-42328200	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr15:42327600-42328200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
29	chr15:42327600-42328200	Enhancers	HepG2	liver
30	chr15:42327600-42330000	Weak transcription	Pancreas	Pancrea
31	chr15:42327800-42329000	Weak transcription	Esophagus	oesophagus
32	chr15:42327800-42329200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr15:42327800-42329200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr15:42327800-42329600	Weak transcription	Lung	lung
35	chr15:42327800-42330000	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr15:42327800-42331000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:42328000-42328200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr15:42328000-42328400	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr15:42328000-42328600	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr15:42328000-42328800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr15:42328000-42329200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr15:42328000-42329200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr15:42328000-42329400	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr15:42328000-42329600	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr15:42328000-42329800	Weak transcription	Duodenum Mucosa	Duodenum
46	chr15:42328000-42330800	Enhancers	HMEC	breast
47	chr15:42328000-42337400	Weak transcription	Fetal Intestine Small	intestine

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