Variant report

Variant	rs572531
Chromosome Location	chr15:55944517-55944518
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10518817	0.89[CEU][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10851589	0.89[CEU][hapmap];0.87[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11636556	0.81[MEX][hapmap]
rs11854213	0.83[JPT][hapmap]
rs12373006	0.91[JPT][hapmap];0.82[MEX][hapmap]
rs12438177	0.85[JPT][hapmap]
rs12591246	0.82[AMR][1000 genomes]
rs12592192	0.82[AMR][1000 genomes]
rs12594642	0.95[MEX][hapmap];0.80[AMR][1000 genomes]
rs12903822	0.86[JPT][hapmap]
rs1371056	0.95[MEX][hapmap];0.80[AMR][1000 genomes]
rs1530087	0.89[CEU][hapmap];0.85[AMR][1000 genomes]
rs16976450	0.82[CHD][hapmap];0.93[GIH][hapmap];0.91[JPT][hapmap];0.95[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2414424	0.90[MEX][hapmap];0.84[AMR][1000 genomes]
rs2414426	0.95[MEX][hapmap];0.83[AMR][1000 genomes]
rs2414427	0.90[MEX][hapmap];0.84[AMR][1000 genomes]
rs4774797	0.87[ASN][1000 genomes]
rs4774799	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4774800	0.88[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs489672	0.81[YRI][hapmap]
rs492363	0.87[CHB][hapmap];0.89[ASN][1000 genomes]
rs530798	0.81[YRI][hapmap]
rs550226	0.81[EUR][1000 genomes]
rs581287	0.81[YRI][hapmap]
rs62043869	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62043871	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62043872	0.85[AMR][1000 genomes]
rs6493805	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71110312	0.83[AMR][1000 genomes]
rs715321	0.83[AMR][1000 genomes]
rs7165778	0.85[ASN][1000 genomes]
rs7166952	0.85[ASN][1000 genomes]
rs7171318	0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs7171522	0.84[ASN][1000 genomes]
rs7171834	0.84[ASN][1000 genomes]
rs7178379	0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs7180112	0.82[AMR][1000 genomes]
rs720509	0.81[YRI][hapmap]
rs8034113	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9920076	0.89[CEU][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9920246	0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs9920262	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]

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	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv1049774	chr15:55759573-56044600	Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv569540	chr15:55866065-55950082	Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
8	nsv457158	chr15:55930542-55982257	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv569541	chr15:55930542-55982257	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55908600-55945000	Weak transcription	Left Ventricle	heart
2	chr15:55911800-55977000	Weak transcription	Fetal Intestine Small	intestine
3	chr15:55920600-55953400	Weak transcription	HUVEC	blood vessel
4	chr15:55920800-55944600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr15:55920800-55987600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:55924400-55944800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr15:55932000-55946800	Weak transcription	Fetal Stomach	stomach
8	chr15:55932600-55946800	Weak transcription	Fetal Lung	lung
9	chr15:55932600-55987000	Weak transcription	Ovary	ovary
10	chr15:55932800-55946200	Weak transcription	A549	lung
11	chr15:55932800-55946400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:55932800-55946800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr15:55932800-55973400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr15:55933000-55945800	Weak transcription	Fetal Muscle Trunk	muscle
15	chr15:55933400-55947000	Weak transcription	Fetal Kidney	kidney
16	chr15:55933400-55950800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr15:55933400-55953200	Weak transcription	HepG2	liver
18	chr15:55933400-55953400	Weak transcription	Fetal Intestine Large	intestine
19	chr15:55939200-55953400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:55941400-55945400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:55942800-55974400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:55943400-55944600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:55943400-55945000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:55943400-55947400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:55943600-55945400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:55943600-55945600	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr15:55944000-55944600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr15:55944000-55944800	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr15:55944000-55945000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr15:55944000-55945600	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr15:55944200-55944800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr15:55944200-55945000	Enhancers	iPS-20b Cell Line	embryonic stem cell
33	chr15:55944200-55945400	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr15:55944400-55944600	Enhancers	Brain Substantia Nigra	brain
35	chr15:55944400-55945200	Enhancers	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links