Variant report

Variant	rs17479135
Chromosome Location	chr15:78473018-78473019
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10456	1.00[CHB][hapmap]
rs11854120	1.00[ASN][1000 genomes]
rs11856106	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12440984	1.00[CHB][hapmap]
rs17479031	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[TSI][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]
rs17850483	1.00[ASN][1000 genomes]
rs17850484	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[TSI][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]
rs2304829	1.00[CHB][hapmap]
rs3825847	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];1.00[ASN][1000 genomes]
rs45444496	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4570804	1.00[ASN][1000 genomes]
rs57867560	1.00[ASN][1000 genomes]
rs62009333	1.00[ASN][1000 genomes]
rs62009334	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62009335	1.00[ASN][1000 genomes]
rs62009337	1.00[ASN][1000 genomes]
rs62009339	1.00[ASN][1000 genomes]
rs62009340	1.00[ASN][1000 genomes]
rs62009342	1.00[ASN][1000 genomes]
rs62009343	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62009344	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62009346	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7165154	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs8026525	0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv948437	chr15:78435527-78504662	Strong transcription Bivalent Enhancer Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS 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	15 gene(s)	inside rSNPs	diseases
3	nsv904430	chr15:78466127-78507316	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78447000-78475200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:78460200-78474200	Weak transcription	HepG2	liver
3	chr15:78464800-78475000	Weak transcription	HMEC	breast
4	chr15:78465200-78474200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:78465200-78475000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:78465200-78475600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr15:78465400-78474800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr15:78465400-78475200	Weak transcription	NHEK	skin
9	chr15:78466800-78473200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr15:78466800-78473400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:78467000-78473200	Weak transcription	Aorta	Aorta
12	chr15:78467000-78473200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr15:78467000-78473400	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr15:78467200-78477200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:78467400-78474800	Weak transcription	Fetal Brain Female	brain
16	chr15:78467400-78475400	Enhancers	Fetal Thymus	thymus
17	chr15:78470200-78477000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr15:78470200-78486600	Weak transcription	Brain Hippocampus Middle	brain
19	chr15:78470400-78493800	Weak transcription	Brain Substantia Nigra	brain
20	chr15:78470600-78477200	Weak transcription	Brain Anterior Caudate	brain
21	chr15:78470600-78486600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr15:78471200-78475800	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr15:78472000-78473600	Enhancers	Spleen	Spleen
24	chr15:78472400-78473800	Enhancers	Thymus	Thymus
25	chr15:78472400-78475400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr15:78472600-78473400	Enhancers	Fetal Muscle Leg	muscle
27	chr15:78472800-78473600	Enhancers	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links