Variant report

Variant	rs1877298
Chromosome Location	chr15:77923072-77923073
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77839369..77839946-chr15:77923059..77923563,2	MCF-7	breast:
2	chr15:77922761..77925687-chr15:77933695..77936379,3	K562	blood:
3	chr15:77914562..77916092-chr15:77921484..77924358,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259666	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1007538	0.91[ASN][1000 genomes]
rs11630768	1.00[CEU][hapmap];0.91[CHB][hapmap];0.80[JPT][hapmap]
rs11633639	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs11634778	0.82[JPT][hapmap]
rs11635239	0.85[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap]
rs11852680	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11854903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11855155	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs11856978	0.90[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11856998	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11857045	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13329256	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs16969013	0.92[ASN][1000 genomes]
rs16969027	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap]
rs1877292	1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1877293	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1877294	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1877295	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1995972	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2292415	0.85[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap]
rs2292416	0.85[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap]
rs2292417	0.85[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap]
rs28374408	0.82[AFR][1000 genomes]
rs28501538	0.90[ASN][1000 genomes]
rs28503184	0.83[AFR][1000 genomes]
rs28575171	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28575624	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs28649029	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28654794	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28661259	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28674549	0.94[ASN][1000 genomes]
rs28684542	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28702901	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs28720884	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28733160	0.94[ASN][1000 genomes]
rs3942665	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4886888	0.82[CHB][hapmap]
rs56037535	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56209055	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56929920	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs57354334	0.94[ASN][1000 genomes]
rs60677748	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs61079432	0.94[ASN][1000 genomes]
rs7165679	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7171716	0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7182167	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs74025322	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs74025324	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs74025331	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74025333	0.88[AFR][1000 genomes]
rs8023571	0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs8024724	0.91[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs8024932	0.91[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs8026164	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8027456	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8027963	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8028788	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes]
rs9806280	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes]
rs9920101	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9920113	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9920127	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9920132	0.83[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9920134	0.91[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9920869	0.83[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9972481	1.00[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][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	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:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77910400-77923400	Weak transcription	Pancreas	Pancrea
2	chr15:77914400-77923200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:77919600-77923200	Enhancers	H9 Cell Line	embryonic stem cell
4	chr15:77921400-77923400	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr15:77921600-77923400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:77921800-77923200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:77921800-77923400	Flanking Active TSS	Brain Cingulate Gyrus	brain
8	chr15:77921800-77924200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr15:77921800-77924400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
10	chr15:77922000-77923200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:77922000-77923200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr15:77922000-77923800	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:77922000-77924000	Bivalent Enhancer	Placenta	Placenta
14	chr15:77922200-77923400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
15	chr15:77922200-77924000	Bivalent/Poised TSS	Brain Germinal Matrix	brain
16	chr15:77922400-77923600	Enhancers	Spleen	Spleen
17	chr15:77922600-77923400	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
18	chr15:77922600-77923400	Flanking Active TSS	K562	blood
19	chr15:77922600-77924000	Enhancers	Fetal Lung	lung
20	chr15:77922600-77924800	Bivalent/Poised TSS	Fetal Brain Female	brain
21	chr15:77922800-77923200	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr15:77922800-77923200	Bivalent Enhancer	Fetal Stomach	stomach
23	chr15:77922800-77923400	Flanking Bivalent TSS/Enh	Fetal Brain Male	brain
24	chr15:77922800-77923600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
25	chr15:77922800-77924000	Weak transcription	Right Atrium	heart
26	chr15:77923000-77923200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr15:77923000-77923200	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr15:77923000-77923200	Active TSS	Fetal Kidney	kidney
29	chr15:77923000-77923200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
30	chr15:77923000-77923200	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
31	chr15:77923000-77923400	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr15:77923000-77923400	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
33	chr15:77923000-77923400	Flanking Active TSS	Brain Angular Gyrus	brain
34	chr15:77923000-77923400	Flanking Active TSS	Brain Anterior Caudate	brain
35	chr15:77923000-77923400	Flanking Active TSS	Brain Substantia Nigra	brain
36	chr15:77923000-77923400	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
37	chr15:77923000-77923600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
38	chr15:77923000-77923600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
39	chr15:77923000-77923600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
40	chr15:77923000-77924400	Flanking Active TSS	H1 Cell Line	embryonic stem cell
41	chr15:77923000-77924400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
42	chr15:77923000-77924600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr15:77923000-77924600	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr15:77923000-77924600	Bivalent Enhancer	Fetal Heart	heart
45	chr15:77923000-77927400	Active TSS	HUES48 Cell Line	embryonic stem cell

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