Variant report

Variant	rs17671580
Chromosome Location	chr15:30016823-30016824
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	chr15:30014884..30018559-chr15:30110682..30116095,4	K562	blood:
2	chr15:30015797..30018327-chr15:30112866..30114621,2	K562	blood:

Variant related genes	Relation type
ENSG00000259523	Chromatin interaction
ENSG00000104067	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10519665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10775231	1.00[CHB][hapmap]
rs11636849	1.00[CHB][hapmap]
rs11855551	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1585900	1.00[CHB][hapmap]
rs16955795	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17570926	0.82[CEU][hapmap];0.90[EUR][1000 genomes]
rs17671556	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];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2035326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291166	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3784356	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];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45451205	0.90[EUR][1000 genomes]
rs45452501	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45459202	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45526331	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs45553932	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45590341	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45614640	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6495945	1.00[CHB][hapmap]
rs7168919	1.00[CHB][hapmap]
rs7170406	1.00[CHB][hapmap]
rs72719072	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72719077	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs785446	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv456736	chr15:29327352-30208654	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv568675	chr15:29327352-30208654	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv995038	chr15:29744279-30366124	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv1038495	chr15:29825859-30351687	Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv542293	chr15:29825859-30351687	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv832944	chr15:29861062-30082057	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv832945	chr15:29932599-30123721	Genic enhancers Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
8	esv2422463	chr15:30003189-30215336	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:29989600-30021200	Strong transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:29989600-30027200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr15:29990200-30028400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr15:29990400-30026400	Strong transcription	Stomach Smooth Muscle	stomach
5	chr15:29991200-30020200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr15:29991200-30022400	Strong transcription	Skeletal Muscle Female	skeletal muscle
7	chr15:29992000-30026600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:29993200-30019600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr15:29996200-30021400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr15:30005000-30023000	Strong transcription	Muscle Satellite Cultured Cells	--
11	chr15:30005400-30022800	Strong transcription	HSMMtube	muscle
12	chr15:30006800-30018200	Strong transcription	Colon Smooth Muscle	Colon
13	chr15:30007200-30021400	Strong transcription	Fetal Kidney	kidney
14	chr15:30007200-30021400	Strong transcription	NHLF	lung
15	chr15:30010200-30018600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:30013400-30017600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:30013600-30018400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr15:30014200-30017600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:30014200-30017600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
20	chr15:30014400-30017000	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
21	chr15:30014400-30017400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
22	chr15:30014800-30017200	Strong transcription	Fetal Heart	heart
23	chr15:30014800-30021200	Strong transcription	HMEC	breast
24	chr15:30014800-30028400	Strong transcription	NHEK	skin
25	chr15:30015000-30018800	Strong transcription	Brain Substantia Nigra	brain
26	chr15:30015000-30018800	Strong transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:30015000-30021600	Strong transcription	Brain Angular Gyrus	brain
28	chr15:30015000-30022200	Strong transcription	Osteobl	bone
29	chr15:30015000-30024400	Weak transcription	Psoas Muscle	Psoas
30	chr15:30015000-30028400	Weak transcription	Stomach Mucosa	stomach
31	chr15:30015000-30035000	Strong transcription	Adipose Nuclei	Adipose
32	chr15:30015200-30017000	Strong transcription	Liver	Liver
33	chr15:30015200-30018200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr15:30015200-30018600	Strong transcription	Aorta	Aorta
35	chr15:30015200-30020800	Strong transcription	Brain Anterior Caudate	brain
36	chr15:30015200-30021200	Strong transcription	Brain Hippocampus Middle	brain
37	chr15:30015200-30021400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr15:30015200-30021400	Strong transcription	Duodenum Mucosa	Duodenum
39	chr15:30015200-30021600	Strong transcription	Ovary	ovary
40	chr15:30015200-30022800	Strong transcription	NH-A	brain
41	chr15:30015200-30023200	Strong transcription	Placenta	Placenta
42	chr15:30015200-30024200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr15:30015400-30017600	Strong transcription	Hela-S3	cervix
44	chr15:30015400-30019400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr15:30015400-30019600	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr15:30015400-30026600	Strong transcription	Brain Inferior Temporal Lobe	brain
47	chr15:30015400-30028600	Strong transcription	HUVEC	blood vessel
48	chr15:30015600-30021000	Strong transcription	NHDF-Ad	bronchial
49	chr15:30015600-30021400	Strong transcription	Fetal Lung	lung
50	chr15:30015600-30026600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links