Variant report

Variant	rs7171716
Chromosome Location	chr15:77920153-77920154
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77918924..77920822-chr15:78112303..78114032,2	MCF-7	breast:
2	chr15:77917906..77920772-chr15:78100061..78102458,2	K562	blood:

Variant related genes	Relation type
ENSG00000169783	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1007538	0.94[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11630768	0.92[CHB][hapmap];0.81[JPT][hapmap]
rs11633639	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs11634778	0.83[JPT][hapmap]
rs11635239	0.92[CHB][hapmap];0.83[JPT][hapmap]
rs11852680	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854903	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11855155	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs11856978	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap];0.97[ASN][1000 genomes]
rs11856998	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11857045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13329256	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs16969013	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16969027	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs1877292	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]
rs1877293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877294	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]
rs1877295	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877298	0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1995972	0.93[ASN][1000 genomes]
rs2292415	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs2292416	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs2292417	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs28501538	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28575171	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28575624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28649029	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28654794	0.97[ASN][1000 genomes]
rs28661259	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28674549	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28684542	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28702901	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28720884	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs28733160	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3942665	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4886888	0.81[CHB][hapmap]
rs56037535	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56209055	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56929920	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57354334	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60677748	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs61079432	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165679	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7182167	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74025322	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs74025324	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74025331	0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8023571	0.92[CHB][hapmap];0.89[JPT][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8024724	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8024932	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[YRI][hapmap];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8026164	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027456	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]
rs8027963	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8028788	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs9806280	0.92[CHB][hapmap];0.83[JPT][hapmap]
rs9920101	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]
rs9920113	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];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920127	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920132	0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9920134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920869	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]
rs9972481	0.91[CHB][hapmap];0.81[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	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv904419	chr15:77897197-77943935	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77910400-77923400	Weak transcription	Pancreas	Pancrea
2	chr15:77912200-77920200	Enhancers	Brain Angular Gyrus	brain
3	chr15:77913600-77923000	Enhancers	H1 Cell Line	embryonic stem cell
4	chr15:77914200-77920400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:77914400-77923200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:77914800-77921600	Enhancers	Fetal Brain Male	brain
7	chr15:77915400-77921800	Weak transcription	Brain Substantia Nigra	brain
8	chr15:77915800-77923000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr15:77916600-77922800	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr15:77917200-77922400	Weak transcription	Spleen	Spleen
11	chr15:77917200-77922600	Weak transcription	Right Atrium	heart
12	chr15:77918000-77920600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:77918000-77922600	Weak transcription	Fetal Lung	lung
14	chr15:77918600-77920600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:77919000-77920200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr15:77919000-77920200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
17	chr15:77919000-77921600	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr15:77919000-77922000	Enhancers	Brain Anterior Caudate	brain
19	chr15:77919000-77922200	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr15:77919400-77920200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:77919400-77920200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:77919400-77920400	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr15:77919400-77920400	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr15:77919600-77920200	Flanking Active TSS	Fetal Brain Female	brain
25	chr15:77919600-77923200	Enhancers	H9 Cell Line	embryonic stem cell
26	chr15:77919800-77920600	Enhancers	Brain Cingulate Gyrus	brain
27	chr15:77920000-77920200	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr15:77920000-77920200	Enhancers	Fetal Stomach	stomach
29	chr15:77920000-77921200	Weak transcription	K562	blood
30	chr15:77920000-77921600	Weak transcription	Brain Hippocampus Middle	brain
31	chr15:77920000-77922000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links