Variant report

Variant	rs12442905
Chromosome Location	chr15:35278923-35278924
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:35278794..35283582-chr15:35283942..35288956,6	MCF-7	breast:
2	chr15:35277451..35279992-chr15:35357452..35360430,2	MCF-7	breast:
3	chr15:35266160..35271969-chr15:35278502..35282901,8	K562	blood:
4	chr15:35276711..35279528-chr15:35281828..35283922,2	MCF-7	breast:
5	chr15:35272114..35275594-chr15:35276542..35279290,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000212768	Chromatin interaction
ENSG00000259181	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10152246	0.86[CHB][hapmap]
rs10438394	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10519967	0.86[CHB][hapmap];0.86[CHD][hapmap]
rs11073076	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs11629721	0.82[ASN][1000 genomes]
rs11635485	0.94[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs11636350	0.95[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs11855784	0.90[CHB][hapmap];0.87[CHD][hapmap];0.85[GIH][hapmap]
rs11857217	0.86[CHB][hapmap];0.82[CHD][hapmap];0.89[GIH][hapmap]
rs12185138	1.00[CEU][hapmap];0.96[GIH][hapmap];0.87[LWK][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12439825	0.95[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs12440456	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12441126	0.82[AMR][1000 genomes]
rs12441204	0.91[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap]
rs12591197	0.90[ASN][1000 genomes]
rs12593603	0.84[ASN][1000 genomes]
rs12593818	0.91[CHB][hapmap];0.87[CHD][hapmap]
rs12708534	0.85[ASN][1000 genomes]
rs12899377	0.89[CHB][hapmap]
rs12901394	0.84[ASN][1000 genomes]
rs12901466	0.84[ASN][1000 genomes]
rs12901794	0.87[ASN][1000 genomes]
rs12901991	0.91[CHB][hapmap]
rs12915493	0.86[CHB][hapmap];0.87[CHD][hapmap]
rs12917386	0.91[CHB][hapmap]
rs1376784	0.86[CHB][hapmap];0.87[CHD][hapmap]
rs16959966	0.91[CHB][hapmap]
rs1964518	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2060809	1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.87[ASN][1000 genomes]
rs2060810	0.90[CHB][hapmap];0.92[CHD][hapmap];0.85[ASN][1000 genomes]
rs2060811	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2060812	0.87[CHB][hapmap];0.87[JPT][hapmap];0.85[ASN][1000 genomes]
rs2290320	0.80[CHB][hapmap];0.87[CHD][hapmap];0.82[GIH][hapmap]
rs2305411	0.95[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs2339747	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28433224	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28441514	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28498500	0.84[ASN][1000 genomes]
rs35356959	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35799802	0.80[AMR][1000 genomes]
rs36067547	0.85[ASN][1000 genomes]
rs3743121	0.90[CHB][hapmap];0.87[CHD][hapmap]
rs3816447	0.86[CHB][hapmap];0.87[CHD][hapmap]
rs3848167	0.91[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap]
rs4513050	1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.87[MEX][hapmap];0.86[ASN][1000 genomes]
rs4569214	0.91[CHB][hapmap]
rs4614679	0.82[CHB][hapmap]
rs4923817	0.86[CHB][hapmap]
rs4923845	0.95[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs4923849	1.00[CHD][hapmap];0.96[ASN][1000 genomes]
rs4924325	0.91[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap]
rs4924344	0.86[CHB][hapmap];0.86[CHD][hapmap]
rs4924357	0.86[CHB][hapmap]
rs4924369	0.86[CHB][hapmap];0.87[CHD][hapmap]
rs4924435	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4924440	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4924463	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6495724	0.91[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.83[MEX][hapmap]
rs6495728	0.85[ASN][1000 genomes]
rs6495729	0.95[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs6495730	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs7164151	0.95[CHB][hapmap];1.00[CHD][hapmap];0.89[JPT][hapmap];0.94[ASN][1000 genomes]
rs7164169	1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.89[ASN][1000 genomes]
rs7164266	1.00[CHB][hapmap];0.94[CHD][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.89[ASN][1000 genomes]
rs7164977	0.91[CHB][hapmap]
rs7167892	0.86[CHB][hapmap]
rs7170280	0.84[ASN][1000 genomes]
rs7172507	0.81[ASN][1000 genomes]
rs7177337	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7177962	0.91[CHB][hapmap]
rs7179205	0.87[ASN][1000 genomes]
rs7179833	1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs7181836	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7182356	1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs8025770	0.91[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.88[MEX][hapmap]
rs8029930	0.92[CEU][hapmap];1.00[GIH][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8031861	0.85[ASN][1000 genomes]
rs8033077	0.83[ASN][1000 genomes]
rs8037200	1.00[CEU][hapmap];1.00[GIH][hapmap];0.87[LWK][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8037610	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs8040551	0.86[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];0.92[MEX][hapmap]
rs959478	0.91[CHB][hapmap]
rs963425	0.86[CHB][hapmap]
rs9806487	0.86[CHB][hapmap]
rs9920529	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35262400-35279000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:35262400-35279000	Weak transcription	Aorta	Aorta
3	chr15:35277200-35279000	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
4	chr15:35277200-35279000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr15:35277200-35279000	Weak transcription	Lung	lung
6	chr15:35277200-35279000	Enhancers	Pancreas	Pancrea
7	chr15:35277200-35279600	Flanking Active TSS	Liver	Liver
8	chr15:35277400-35279000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:35277600-35279400	Transcr. at gene 5' and 3'	HUES48 Cell Line	embryonic stem cell
10	chr15:35277800-35279200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr15:35277800-35279600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr15:35277800-35279600	Transcr. at gene 5' and 3'	K562	blood
13	chr15:35278000-35279000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr15:35278200-35279000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr15:35278200-35279000	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
16	chr15:35278200-35279200	Flanking Active TSS	HMEC	breast
17	chr15:35278200-35279600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
18	chr15:35278200-35279600	Flanking Active TSS	HUVEC	blood vessel
19	chr15:35278200-35279800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr15:35278400-35279200	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:35278400-35279200	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
22	chr15:35278400-35279200	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
23	chr15:35278400-35279200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr15:35278400-35279200	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells	blood
25	chr15:35278400-35279400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr15:35278400-35279400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
27	chr15:35278400-35279400	Enhancers	Primary B cells from peripheral blood	blood
28	chr15:35278400-35279400	Transcr. at gene 5' and 3'	A549	lung
29	chr15:35278400-35279600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr15:35278400-35279600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
31	chr15:35278400-35279600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
32	chr15:35278400-35279600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
33	chr15:35278400-35279600	Flanking Active TSS	Brain Germinal Matrix	brain
34	chr15:35278400-35279600	Transcr. at gene 5' and 3'	Dnd41	blood
35	chr15:35278400-35279600	Flanking Active TSS	Hela-S3	cervix
36	chr15:35278400-35279600	Flanking Active TSS	NH-A	brain
37	chr15:35278400-35279800	Enhancers	Spleen	Spleen
38	chr15:35278400-35280000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
39	chr15:35278400-35280000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr15:35278400-35280000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
41	chr15:35278400-35281200	Active TSS	H1 Cell Line	embryonic stem cell
42	chr15:35278400-35281600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr15:35278600-35279000	Transcr. at gene 5' and 3'	ES-I3 Cell Line	embryonic stem cell
44	chr15:35278600-35279000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr15:35278600-35279000	Flanking Active TSS	H9 Cell Line	embryonic stem cell
46	chr15:35278600-35279000	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr15:35278600-35279000	Transcr. at gene 5' and 3'	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:35278600-35279000	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr15:35278600-35279000	Enhancers	Colon Smooth Muscle	Colon
50	chr15:35278600-35279000	Flanking Active TSS	Fetal Brain Female	brain

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