Variant report

Variant	rs8030407
Chromosome Location	chr15:52527502-52527503
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52526628..52528365-chr15:52537492..52540150,2	MCF-7	breast:
2	chr15:52521390..52524844-chr15:52525282..52528513,3	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10851509	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11070886	0.83[YRI][hapmap]
rs11070891	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs11631002	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4278685	0.91[YRI][hapmap]
rs4497629	0.91[YRI][hapmap]
rs4774614	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4776022	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4776026	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4776029	0.91[YRI][hapmap]
rs4776032	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs7165256	0.87[LWK][hapmap];0.84[YRI][hapmap]
rs7175945	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs7180204	0.87[LWK][hapmap];0.84[YRI][hapmap]

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	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv833005	chr15:52389869-52541330	Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	esv1851383	chr15:52501831-52534344	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1537	chr15:52502246-52537067	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52479800-52532800	Weak transcription	Brain Angular Gyrus	brain
2	chr15:52497400-52535600	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr15:52497800-52549000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr15:52501600-52532600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr15:52501800-52528000	Weak transcription	Fetal Heart	heart
6	chr15:52505600-52549200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:52506400-52548800	Weak transcription	Fetal Kidney	kidney
8	chr15:52509400-52537200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr15:52512800-52534000	Weak transcription	Colonic Mucosa	Colon
10	chr15:52514000-52539400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr15:52516000-52549400	Weak transcription	Left Ventricle	heart
12	chr15:52516800-52528200	Weak transcription	Spleen	Spleen
13	chr15:52519000-52528200	Weak transcription	Duodenum Mucosa	Duodenum
14	chr15:52520200-52533800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr15:52521600-52530400	Weak transcription	Fetal Intestine Large	intestine
16	chr15:52521600-52531400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr15:52522400-52531400	Weak transcription	Stomach Mucosa	stomach
18	chr15:52523400-52528600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr15:52523400-52530000	Strong transcription	HUES48 Cell Line	embryonic stem cell
20	chr15:52523400-52530400	Strong transcription	HepG2	liver
21	chr15:52523400-52532400	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr15:52523400-52532600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:52523400-52548600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr15:52523600-52530000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr15:52523800-52528600	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr15:52523800-52528600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr15:52523800-52530000	Strong transcription	H1 Cell Line	embryonic stem cell
28	chr15:52524000-52528000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr15:52524400-52579400	Weak transcription	Small Intestine	intestine
30	chr15:52524600-52528600	Enhancers	Primary T helper naive cells from peripheral blood	blood
31	chr15:52524600-52530000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr15:52525200-52532200	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr15:52525400-52528000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr15:52525400-52528600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr15:52525600-52528200	Enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr15:52525600-52528200	Enhancers	Thymus	Thymus
37	chr15:52525600-52528400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr15:52525600-52528600	Enhancers	Primary T cells fromperipheralblood	blood
39	chr15:52525600-52528600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr15:52525600-52528600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr15:52525600-52528600	Enhancers	Fetal Thymus	thymus
42	chr15:52525600-52530400	Strong transcription	H9 Cell Line	embryonic stem cell
43	chr15:52525600-52532600	Strong transcription	Fetal Muscle Trunk	muscle
44	chr15:52525800-52527800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr15:52525800-52528600	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr15:52525800-52554000	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr15:52526000-52528000	Weak transcription	HSMMtube	muscle
48	chr15:52526000-52528400	Strong transcription	Esophagus	oesophagus
49	chr15:52526000-52528600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr15:52526000-52528600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links