Variant report

Variant	rs1552034
Chromosome Location	chr15:59885466-59885467
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10083653	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10163153	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11071458	0.85[EUR][1000 genomes]
rs11852448	0.90[CHB][hapmap];0.90[EUR][1000 genomes]
rs11852458	0.95[CHB][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12438840	0.92[EUR][1000 genomes]
rs12440292	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12901058	0.86[EUR][1000 genomes]
rs12902622	0.87[CEU][hapmap]
rs1479883	0.82[ASN][1000 genomes]
rs1479884	0.82[ASN][1000 genomes]
rs1552033	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1600406	0.81[ASN][1000 genomes]
rs17269684	0.87[CEU][hapmap];0.82[CHB][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28634844	0.81[ASN][1000 genomes]
rs34444281	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34526393	0.81[ASN][1000 genomes]
rs34642067	0.93[EUR][1000 genomes]
rs35046363	0.84[ASN][1000 genomes]
rs35208294	0.84[ASN][1000 genomes]
rs35461856	0.86[EUR][1000 genomes]
rs4597252	0.90[EUR][1000 genomes]
rs67189240	0.87[ASN][1000 genomes]
rs71480534	0.86[EUR][1000 genomes]
rs71480535	0.92[EUR][1000 genomes]
rs71480536	0.88[EUR][1000 genomes]
rs7169937	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7171752	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8036403	1.00[CEU][hapmap];0.82[CHB][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8037054	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv569605	chr15:59855226-59956553	Strong transcription Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv533240	chr15:59858093-59998176	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	nsv569606	chr15:59883809-59894636	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59882400-59891600	Weak transcription	Small Intestine	intestine
2	chr15:59883600-59887200	Weak transcription	Colonic Mucosa	Colon
3	chr15:59883800-59887400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:59884200-59886000	Weak transcription	Fetal Intestine Small	intestine
5	chr15:59884200-59886000	Weak transcription	A549	lung
6	chr15:59884200-59886400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:59884200-59886400	Weak transcription	HepG2	liver
8	chr15:59884200-59886600	Weak transcription	Stomach Mucosa	stomach
9	chr15:59884400-59885600	Weak transcription	Fetal Intestine Large	intestine
10	chr15:59884400-59886800	Weak transcription	HMEC	breast
11	chr15:59884400-59887000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:59884600-59886400	Weak transcription	NHEK	skin
13	chr15:59884600-59886600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr15:59884800-59886800	Weak transcription	Esophagus	oesophagus
15	chr15:59885400-59887200	Enhancers	Rectal Mucosa Donor 29	rectum
16	chr15:59885400-59887800	Enhancers	Rectal Mucosa Donor 31	rectum
17	chr15:59885400-59888000	Enhancers	Duodenum Mucosa	Duodenum

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