Variant report

Variant	rs12136870
Chromosome Location	chr1:209551876-209551877
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:209551334..209552911-chr1:209600518..209602204,2	MCF-7	breast:
2	chr1:209547762..209552825-chr1:209601391..209605097,6	MCF-7	breast:
3	chr1:209551724..209554636-chr1:209607161..209609354,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000230937	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12064516	0.80[EUR][1000 genomes]
rs12116965	0.81[EUR][1000 genomes]
rs12119349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12119464	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12119465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12120032	0.84[EUR][1000 genomes]
rs12120757	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12121931	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12124710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12125358	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12126305	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12126769	0.86[EUR][1000 genomes]
rs12128640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12135244	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12137134	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12137788	0.86[EUR][1000 genomes]
rs12139847	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12144443	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12144663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12144725	0.85[EUR][1000 genomes]
rs12145008	0.86[EUR][1000 genomes]
rs12145858	0.81[EUR][1000 genomes]
rs6668608	0.86[EUR][1000 genomes]
rs74155466	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs74155471	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs74155478	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832492	chr1:209383771-209589312	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209546600-209552800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:209547400-209556000	Weak transcription	Esophagus	oesophagus
3	chr1:209549000-209552800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:209549400-209552400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr1:209549400-209552800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:209549400-209556200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr1:209549400-209556600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr1:209549600-209552800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr1:209549600-209557200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr1:209549800-209552000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr1:209549800-209552400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr1:209549800-209553000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr1:209549800-209560400	Weak transcription	HSMM	muscle
14	chr1:209550000-209552200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr1:209550000-209552600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr1:209550000-209552600	Weak transcription	Osteobl	bone
17	chr1:209550000-209555400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr1:209550000-209555400	Weak transcription	Fetal Brain Male	brain
19	chr1:209550200-209552400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr1:209550200-209555200	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr1:209550200-209555400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr1:209550200-209555400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr1:209550200-209560600	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr1:209551000-209554800	Enhancers	NHEK	skin
25	chr1:209551600-209552600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr1:209551600-209554200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr1:209551600-209554200	Enhancers	HMEC	breast
28	chr1:209551800-209552000	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr1:209551800-209554200	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr1:209551800-209556400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links