Variant report

Variant	rs17525144
Chromosome Location	chr15:93460255-93460256
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:93346072..93348762-chr15:93459869..93461436,3	K562	blood:
2	chr15:93339283..93342293-chr15:93459393..93462402,3	MCF-7	breast:
3	chr15:93333327..93367027-chr15:93419774..93462750,363	K562	blood:
4	chr15:93459946..93461504-chr15:93479253..93480891,2	MCF-7	breast:
5	chr15:93344712..93371031-chr15:93418700..93467618,365	MCF-7	breast:
6	chr15:93360172..93364704-chr15:93459982..93465049,6	MCF-7	breast:
7	chr15:93455340..93459027-chr15:93459316..93461094,3	MCF-7	breast:
8	chr15:93345270..93347540-chr15:93458175..93460933,2	MCF-7	breast:
9	chr15:93459389..93462852-chr15:93472444..93474181,3	K562	blood:
10	chr15:93350620..93356582-chr15:93455419..93466792,23	MCF-7	breast:
11	chr15:93459868..93463900-chr15:93464643..93468863,9	K562	blood:
12	chr15:93459389..93460980-chr15:93471786..93474181,2	K562	blood:
13	chr15:93394824..93396394-chr15:93458350..93461084,2	K562	blood:
14	chr15:93352539..93354276-chr15:93460171..93462164,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000258527	Chromatin interaction
ENSG00000173575	Chromatin interaction
ENSG00000258922	Chromatin interaction
ENSG00000185442	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12591615	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12595673	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17525249	0.89[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17609875	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17610360	1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs60127556	0.85[ASN][1000 genomes]
rs6496996	1.00[JPT][hapmap]
rs7350766	0.86[CEU][hapmap];1.00[JPT][hapmap]
rs8042437	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
2	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
3	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
4	nsv530846	chr15:93323949-94030462	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
5	nsv948881	chr15:93383740-93603608	Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
6	nsv1047496	chr15:93412778-93475878	Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	87 gene(s)	inside rSNPs	diseases
7	nsv1036560	chr15:93413594-93462163	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	87 gene(s)	inside rSNPs	diseases
8	nsv530847	chr15:93444024-93555676	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
9	nsv917347	chr15:93444094-93586814	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93449800-93460800	Enhancers	Stomach Mucosa	stomach
2	chr15:93451800-93464000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr15:93452000-93461000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr15:93454000-93460600	Weak transcription	Ovary	ovary
5	chr15:93454000-93464000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:93454200-93460600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr15:93454200-93460600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:93454200-93460800	Enhancers	Adipose Nuclei	Adipose
9	chr15:93454600-93460600	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr15:93455400-93460600	Weak transcription	Fetal Lung	lung
11	chr15:93455600-93464400	Weak transcription	Fetal Muscle Trunk	muscle
12	chr15:93455600-93464800	Weak transcription	Fetal Brain Female	brain
13	chr15:93456200-93460600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr15:93456600-93461600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr15:93457000-93489800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:93457200-93464000	Weak transcription	Gastric	stomach
17	chr15:93457800-93461000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr15:93457800-93464200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:93458200-93460600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:93458200-93460600	Genic enhancers	NHEK	skin
21	chr15:93458200-93460800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr15:93458200-93460800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:93458200-93460800	Weak transcription	Fetal Brain Male	brain
24	chr15:93458200-93461200	Enhancers	Psoas Muscle	Psoas
25	chr15:93458200-93461800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr15:93458200-93463600	Weak transcription	Small Intestine	intestine
27	chr15:93458400-93460600	Weak transcription	NHLF	lung
28	chr15:93458400-93460800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr15:93458400-93460800	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr15:93458400-93460800	Enhancers	Liver	Liver
31	chr15:93458400-93460800	Weak transcription	Brain Anterior Caudate	brain
32	chr15:93458400-93460800	Enhancers	Colon Smooth Muscle	Colon
33	chr15:93458400-93460800	Weak transcription	Fetal Heart	heart
34	chr15:93458400-93462200	Weak transcription	Colonic Mucosa	Colon
35	chr15:93458400-93463600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:93458600-93460600	Weak transcription	HMEC	breast
37	chr15:93458600-93460600	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr15:93458600-93460800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr15:93458600-93460800	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr15:93458800-93461800	Genic enhancers	HepG2	liver
41	chr15:93459000-93460600	Strong transcription	Fetal Intestine Small	intestine
42	chr15:93459000-93460800	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr15:93459000-93460800	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr15:93459000-93461600	Genic enhancers	Primary T cells fromperipheralblood	blood
45	chr15:93459200-93460400	ZNF genes & repeats	GM12878-XiMat	blood
46	chr15:93459200-93460600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr15:93459200-93460600	Genic enhancers	Primary monocytes fromperipheralblood	blood
48	chr15:93459200-93460600	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr15:93459200-93460800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr15:93459200-93460800	Genic enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links