Variant report

Variant	rs8024575
Chromosome Location	chr15:73517629-73517630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:73517252..73519302-chr15:73531037..73533501,2	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10048053	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1023924	0.87[ASN][1000 genomes]
rs10438294	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11072403	0.81[ASN][1000 genomes]
rs11072406	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11072409	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1116880	0.96[ASN][1000 genomes]
rs1131854	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11633469	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11636241	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11639213	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12050774	0.90[ASN][1000 genomes]
rs12050848	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12708506	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12899246	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12902768	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12907139	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1479338	0.91[ASN][1000 genomes]
rs1479339	0.92[ASN][1000 genomes]
rs17762600	0.94[ASN][1000 genomes]
rs17829830	0.92[ASN][1000 genomes]
rs17829957	0.92[ASN][1000 genomes]
rs1812835	0.96[ASN][1000 genomes]
rs1871385	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2046017	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2194924	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2251205	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2415147	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2415148	0.89[ASN][1000 genomes]
rs34013312	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35060813	0.83[EUR][1000 genomes]
rs35450875	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3736510	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3743489	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3784793	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3784796	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3985588	0.92[ASN][1000 genomes]
rs4381562	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4545783	0.87[ASN][1000 genomes]
rs4776630	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55646651	0.94[ASN][1000 genomes]
rs55868723	0.96[ASN][1000 genomes]
rs55939596	0.95[ASN][1000 genomes]
rs56157337	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56215298	0.96[ASN][1000 genomes]
rs56348595	0.96[ASN][1000 genomes]
rs59066156	0.91[ASN][1000 genomes]
rs62016849	0.86[ASN][1000 genomes]
rs62016851	0.89[ASN][1000 genomes]
rs62016853	0.89[ASN][1000 genomes]
rs62016854	0.85[ASN][1000 genomes]
rs62017774	0.93[ASN][1000 genomes]
rs62017776	0.95[ASN][1000 genomes]
rs62017779	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs74022925	0.94[ASN][1000 genomes]
rs74025262	0.92[ASN][1000 genomes]
rs747872	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs747873	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027588	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8029106	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8035063	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8035925	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8040516	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8042700	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9672588	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9972523	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv904340	chr15:73375847-73524629	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv904342	chr15:73390790-73524629	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 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	chr15:73474200-73523800	Weak transcription	Esophagus	oesophagus
2	chr15:73487200-73519800	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr15:73492200-73518000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr15:73493400-73528600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr15:73497800-73541800	Weak transcription	Fetal Kidney	kidney
6	chr15:73509400-73525000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:73509600-73528800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:73515400-73517800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:73515400-73518400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr15:73515600-73520000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr15:73516400-73517800	Weak transcription	Fetal Stomach	stomach
12	chr15:73516400-73518200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:73516400-73518800	Strong transcription	Fetal Intestine Large	intestine
14	chr15:73516400-73523800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr15:73516400-73524000	Weak transcription	Fetal Brain Male	brain
16	chr15:73516600-73518000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr15:73516600-73518400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:73516600-73528200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr15:73516800-73528600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr15:73517000-73519800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:73517200-73517800	Weak transcription	Gastric	stomach
22	chr15:73517200-73518600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr15:73517200-73518600	Enhancers	Sigmoid Colon	Sigmoid Colon
24	chr15:73517200-73518600	Enhancers	Stomach Mucosa	stomach
25	chr15:73517200-73518800	Enhancers	H1 Cell Line	embryonic stem cell
26	chr15:73517200-73519000	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr15:73517400-73517800	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr15:73517400-73518200	Enhancers	Colonic Mucosa	Colon
29	chr15:73517400-73518600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
30	chr15:73517400-73518800	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr15:73517400-73518800	Strong transcription	Fetal Intestine Small	intestine
32	chr15:73517400-73519200	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr15:73517600-73518000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr15:73517600-73518200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:73517600-73518200	Enhancers	A549	lung
36	chr15:73517600-73518400	Enhancers	K562	blood
37	chr15:73517600-73518600	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr15:73517600-73518600	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr15:73517600-73518600	Enhancers	Brain Substantia Nigra	brain
40	chr15:73517600-73518800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr15:73517600-73518800	Enhancers	Psoas Muscle	Psoas
42	chr15:73517600-73519000	Enhancers	Brain Hippocampus Middle	brain
43	chr15:73517600-73520000	Weak transcription	Colon Smooth Muscle	Colon
44	chr15:73517600-73523800	Weak transcription	Brain Cingulate Gyrus	brain
45	chr15:73517600-73528400	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links