Variant report

Variant	rs2412655
Chromosome Location	chr15:42328563-42328564
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:42326859..42328863-chr15:42337249..42339114,2	MCF-7	breast:
2	chr15:42313009..42314884-chr15:42328123..42329860,2	K562	blood:
3	chr15:42326664..42329520-chr15:42335867..42337408,2	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11632564	0.97[ASN][1000 genomes]
rs11632634	0.91[ASN][1000 genomes]
rs16972456	0.86[ASN][1000 genomes]
rs16972467	0.86[ASN][1000 genomes]
rs16972470	0.86[ASN][1000 genomes]
rs16972493	1.00[ASN][1000 genomes]
rs16972496	0.94[ASN][1000 genomes]
rs16972499	0.98[ASN][1000 genomes]
rs16972507	0.94[ASN][1000 genomes]
rs2412654	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28422161	0.89[ASN][1000 genomes]
rs28460654	0.94[ASN][1000 genomes]
rs28526333	0.90[ASN][1000 genomes]
rs55845751	0.86[ASN][1000 genomes]
rs55971911	0.86[ASN][1000 genomes]
rs7175498	0.86[ASN][1000 genomes]
rs7176399	0.86[ASN][1000 genomes]
rs7179219	0.92[ASN][1000 genomes]
rs7182355	0.86[ASN][1000 genomes]
rs73397815	0.86[ASN][1000 genomes]
rs73397843	0.97[ASN][1000 genomes]
rs7496336	0.89[ASN][1000 genomes]
rs8029818	0.86[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:32 , 50 per page) page: 1

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

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links